-- dump date 20140620_140901 -- class Genbank::misc_feature -- table misc_feature_note -- id note 547048000001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048000002 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 547048000003 Integrase core domain; Region: rve; pfam00665 547048000004 Integrase core domain; Region: rve_3; cl15866 547048000005 YopE, N terminal; Region: YopE_N; pfam09020 547048000006 GTPase-activating protein (GAP) domain found in bacterial cytotoxins, ExoS, SptP, and YopE. Part of protein secretion system; stimulates Rac1- dependent cytoskeletal changes that promote bacterial internalization; Region: ToxGAP; cd00219 547048000007 switch II binding region; other site 547048000008 Rac1 P-loop interaction site [polypeptide binding]; other site 547048000009 GTP binding residues [chemical binding]; other site 547048000010 switch I binding region; other site 547048000011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 547048000012 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 547048000013 Integrase core domain; Region: rve_3; cl15866 547048000014 HTH-like domain; Region: HTH_21; pfam13276 547048000015 Integrase core domain; Region: rve; pfam00665 547048000016 Transposase; Region: HTH_Tnp_1; pfam01527 547048000017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048000018 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 547048000019 hypothetical protein; Provisional; Region: PRK11622 547048000020 DDE domain; Region: DDE_Tnp_IS240; pfam13610 547048000021 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 547048000022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048000023 YopD protein; Region: YopD; pfam05844 547048000024 V antigen (LcrV) protein; Region: LcrV; pfam04792 547048000025 type III secretion protein LcrG; Region: LcrG_PcrG; TIGR02573 547048000026 type III secretion system chaperone YscW; Region: YscW; TIGR02567 547048000027 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 547048000028 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 547048000029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048000030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048000031 type III secretion system chaperone, YscB family; Region: type_III_yscB; TIGR02513 547048000032 type III secretion apparatus needle protein; Region: III_needle; TIGR02105 547048000033 type III secretion apparatus protein, YscI/HrpB, C-terminal domain; Region: yscI_hrpB_dom; TIGR02497 547048000034 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 547048000035 YopH, N-terminal; Region: YopH_N; pfam09013 547048000036 Transposase; Region: HTH_Tnp_1; pfam01527 547048000037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048000038 YopH, N-terminal; Region: YopH_N; pfam09013 547048000039 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cd00047 547048000040 Protein-tyrosine phosphatase; Region: Y_phosphatase; pfam00102 547048000041 active site 547048000042 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 547048000043 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 547048000044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 547048000045 Integrase core domain; Region: rve; pfam00665 547048000046 Integrase core domain; Region: rve_3; pfam13683 547048000047 effector protein YopJ; Provisional; Region: PRK15371 547048000048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048000049 Integrase core domain; Region: rve; pfam00665 547048000050 replication protein; Provisional; Region: PRK13750 547048000051 replication protein; Provisional; Region: PRK13702 547048000052 HTH-like domain; Region: HTH_21; pfam13276 547048000053 Integrase core domain; Region: rve; pfam00665 547048000054 Transposase; Region: HTH_Tnp_1; pfam01527 547048000055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048000056 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK13709 547048000057 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 547048000058 trimer interface [polypeptide binding]; other site 547048000059 Haemagglutinin; Region: HIM; pfam05662 547048000060 YadA-like C-terminal region; Region: YadA; pfam03895 547048000061 HTH-like domain; Region: HTH_21; pfam13276 547048000062 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 547048000063 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 547048000064 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 547048000065 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 547048000066 catalytic residues [active] 547048000067 catalytic nucleophile [active] 547048000068 Presynaptic Site I dimer interface [polypeptide binding]; other site 547048000069 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 547048000070 Synaptic Flat tetramer interface [polypeptide binding]; other site 547048000071 Synaptic Site I dimer interface [polypeptide binding]; other site 547048000072 DNA binding site [nucleotide binding] 547048000073 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048000074 DNA-binding interface [nucleotide binding]; DNA binding site 547048000075 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048000076 DNA-binding interface [nucleotide binding]; DNA binding site 547048000077 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 547048000078 HTH-like domain; Region: HTH_21; pfam13276 547048000079 Integrase core domain; Region: rve; pfam00665 547048000080 Integrase core domain; Region: rve_3; pfam13683 547048000081 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 547048000082 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000083 Walker A motif; other site 547048000084 ATP binding site [chemical binding]; other site 547048000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048000086 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048000087 DNA-binding interface [nucleotide binding]; DNA binding site 547048000088 Integrase core domain; Region: rve; pfam00665 547048000089 transposase/IS protein; Provisional; Region: PRK09183 547048000090 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000091 Walker A motif; other site 547048000092 ATP binding site [chemical binding]; other site 547048000093 Walker B motif; other site 547048000094 Rop protein; Region: Rop; pfam01815 547048000095 Pesticin Translocation And Receptor Binding Domain; Region: Pesticin_RB; cd12220 547048000096 TonB box [polypeptide binding]; other site 547048000097 outer membrane protease; Reviewed; Region: PRK12580 547048000098 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048000099 non-specific DNA binding site [nucleotide binding]; other site 547048000100 salt bridge; other site 547048000101 sequence-specific DNA binding site [nucleotide binding]; other site 547048000102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4683 547048000103 FMN-binding protein MioC; Provisional; Region: PRK09004 547048000104 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 547048000105 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547048000106 putative DNA binding site [nucleotide binding]; other site 547048000107 putative Zn2+ binding site [ion binding]; other site 547048000108 AsnC family; Region: AsnC_trans_reg; pfam01037 547048000109 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 547048000110 motif 1; other site 547048000111 dimer interface [polypeptide binding]; other site 547048000112 active site 547048000113 motif 2; other site 547048000114 motif 3; other site 547048000115 hypothetical protein; Provisional; Region: yieM; PRK10997 547048000116 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 547048000117 metal ion-dependent adhesion site (MIDAS); other site 547048000118 regulatory ATPase RavA; Provisional; Region: PRK13531 547048000119 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000120 Walker A motif; other site 547048000121 ATP binding site [chemical binding]; other site 547048000122 Walker B motif; other site 547048000123 arginine finger; other site 547048000124 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 547048000125 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 547048000126 potassium uptake protein; Region: kup; TIGR00794 547048000127 D-ribose pyranase; Provisional; Region: PRK11797 547048000128 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048000129 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 547048000130 substrate binding site [chemical binding]; other site 547048000131 dimer interface [polypeptide binding]; other site 547048000132 ATP binding site [chemical binding]; other site 547048000133 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 547048000134 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 547048000135 putative transporter; Provisional; Region: PRK10504 547048000136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048000137 putative substrate translocation pore; other site 547048000138 Transcriptional regulators [Transcription]; Region: FadR; COG2186 547048000139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048000140 DNA-binding site [nucleotide binding]; DNA binding site 547048000141 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 547048000142 homoserine O-succinyltransferase; Provisional; Region: PRK05368 547048000143 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 547048000144 proposed active site lysine [active] 547048000145 conserved cys residue [active] 547048000146 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 547048000147 malate synthase A; Region: malate_syn_A; TIGR01344 547048000148 active site 547048000149 isocitrate lyase; Provisional; Region: PRK15063 547048000150 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 547048000151 tetramer interface [polypeptide binding]; other site 547048000152 active site 547048000153 Mg2+/Mn2+ binding site [ion binding]; other site 547048000154 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048000155 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 547048000156 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 547048000157 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 547048000158 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 547048000159 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 547048000160 substrate binding pocket [chemical binding]; other site 547048000161 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 547048000162 B12 binding site [chemical binding]; other site 547048000163 cobalt ligand [ion binding]; other site 547048000164 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 547048000165 haemagglutination activity domain; Region: Haemagg_act; pfam05860 547048000166 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048000167 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048000168 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048000169 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048000170 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048000171 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048000172 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 547048000173 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 547048000174 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 547048000175 aspartate kinase III; Validated; Region: PRK09084 547048000176 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 547048000177 nucleotide binding site [chemical binding]; other site 547048000178 substrate binding site [chemical binding]; other site 547048000179 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 547048000180 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 547048000181 dimer interface [polypeptide binding]; other site 547048000182 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 547048000183 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 547048000184 active site 547048000185 dimer interface [polypeptide binding]; other site 547048000186 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 547048000187 dimer interface [polypeptide binding]; other site 547048000188 active site 547048000189 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 547048000190 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048000191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048000192 dimer interface [polypeptide binding]; other site 547048000193 conserved gate region; other site 547048000194 putative PBP binding loops; other site 547048000195 ABC-ATPase subunit interface; other site 547048000196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048000197 dimer interface [polypeptide binding]; other site 547048000198 conserved gate region; other site 547048000199 putative PBP binding loops; other site 547048000200 ABC-ATPase subunit interface; other site 547048000201 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 547048000202 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048000203 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 547048000204 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048000205 Walker A/P-loop; other site 547048000206 ATP binding site [chemical binding]; other site 547048000207 Q-loop/lid; other site 547048000208 ABC transporter signature motif; other site 547048000209 Walker B; other site 547048000210 D-loop; other site 547048000211 H-loop/switch region; other site 547048000212 TOBE domain; Region: TOBE_2; pfam08402 547048000213 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 547048000214 trimer interface; other site 547048000215 sugar binding site [chemical binding]; other site 547048000216 maltose regulon periplasmic protein; Provisional; Region: PRK10564 547048000217 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 547048000218 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 547048000219 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 547048000220 Protein of unknown function (DUF877); Region: DUF877; pfam05943 547048000221 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 547048000222 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 547048000223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048000224 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048000225 DNA-binding interface [nucleotide binding]; DNA binding site 547048000226 Integrase core domain; Region: rve; pfam00665 547048000227 transposase/IS protein; Provisional; Region: PRK09183 547048000228 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000229 Walker A motif; other site 547048000230 ATP binding site [chemical binding]; other site 547048000231 Walker B motif; other site 547048000232 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 547048000233 putative transposase OrfB; Reviewed; Region: PHA02517 547048000234 HTH-like domain; Region: HTH_21; pfam13276 547048000235 Integrase core domain; Region: rve; pfam00665 547048000236 Integrase core domain; Region: rve_2; pfam13333 547048000237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048000238 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048000239 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048000240 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 547048000241 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 547048000242 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 547048000243 intramembrane serine protease GlpG; Provisional; Region: PRK10907 547048000244 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 547048000245 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 547048000246 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 547048000247 active site residue [active] 547048000248 transcriptional regulator MalT; Provisional; Region: PRK04841 547048000249 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048000250 DNA binding residues [nucleotide binding] 547048000251 dimerization interface [polypeptide binding]; other site 547048000252 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 547048000253 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 547048000254 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 547048000255 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 547048000256 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 547048000257 DNA utilization protein GntX; Provisional; Region: PRK11595 547048000258 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048000259 active site 547048000260 carboxylesterase BioH; Provisional; Region: PRK10349 547048000261 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 547048000262 FeoC like transcriptional regulator; Region: FeoC; cl17677 547048000263 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 547048000264 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 547048000265 G1 box; other site 547048000266 GTP/Mg2+ binding site [chemical binding]; other site 547048000267 Switch I region; other site 547048000268 G2 box; other site 547048000269 G3 box; other site 547048000270 Switch II region; other site 547048000271 G4 box; other site 547048000272 G5 box; other site 547048000273 Nucleoside recognition; Region: Gate; pfam07670 547048000274 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 547048000275 Nucleoside recognition; Region: Gate; pfam07670 547048000276 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 547048000277 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 547048000278 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 547048000279 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 547048000280 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 547048000281 RNA binding site [nucleotide binding]; other site 547048000282 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 547048000283 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 547048000284 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 547048000285 osmolarity response regulator; Provisional; Region: ompR; PRK09468 547048000286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048000287 active site 547048000288 phosphorylation site [posttranslational modification] 547048000289 intermolecular recognition site; other site 547048000290 dimerization interface [polypeptide binding]; other site 547048000291 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048000292 DNA binding site [nucleotide binding] 547048000293 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 547048000294 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048000295 dimerization interface [polypeptide binding]; other site 547048000296 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048000297 dimer interface [polypeptide binding]; other site 547048000298 phosphorylation site [posttranslational modification] 547048000299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048000300 ATP binding site [chemical binding]; other site 547048000301 Mg2+ binding site [ion binding]; other site 547048000302 G-X-G motif; other site 547048000303 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 547048000304 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 547048000305 active site 547048000306 substrate-binding site [chemical binding]; other site 547048000307 metal-binding site [ion binding] 547048000308 ATP binding site [chemical binding]; other site 547048000309 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 547048000310 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 547048000311 dimerization interface [polypeptide binding]; other site 547048000312 domain crossover interface; other site 547048000313 redox-dependent activation switch; other site 547048000314 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048000315 RNA binding surface [nucleotide binding]; other site 547048000316 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 547048000317 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 547048000318 motif I; other site 547048000319 active site 547048000320 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048000321 motif II; other site 547048000322 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 547048000323 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 547048000324 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 547048000325 ADP-ribose binding site [chemical binding]; other site 547048000326 dimer interface [polypeptide binding]; other site 547048000327 active site 547048000328 nudix motif; other site 547048000329 metal binding site [ion binding]; metal-binding site 547048000330 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 547048000331 Transglycosylase; Region: Transgly; pfam00912 547048000332 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 547048000333 Competence protein A; Region: Competence_A; pfam11104 547048000334 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 547048000335 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 547048000336 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 547048000337 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547048000338 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547048000339 shikimate kinase; Reviewed; Region: aroK; PRK00131 547048000340 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 547048000341 ADP binding site [chemical binding]; other site 547048000342 magnesium binding site [ion binding]; other site 547048000343 putative shikimate binding site; other site 547048000344 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 547048000345 active site 547048000346 dimer interface [polypeptide binding]; other site 547048000347 metal binding site [ion binding]; metal-binding site 547048000348 hypothetical protein; Reviewed; Region: PRK11901 547048000349 cell division protein DamX; Validated; Region: PRK10905 547048000350 DNA adenine methylase; Provisional; Region: PRK10904 547048000351 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 547048000352 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 547048000353 substrate binding site [chemical binding]; other site 547048000354 hexamer interface [polypeptide binding]; other site 547048000355 metal binding site [ion binding]; metal-binding site 547048000356 phosphoglycolate phosphatase; Provisional; Region: PRK13222 547048000357 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 547048000358 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048000359 motif II; other site 547048000360 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 547048000361 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 547048000362 active site 547048000363 HIGH motif; other site 547048000364 dimer interface [polypeptide binding]; other site 547048000365 KMSKS motif; other site 547048000366 siroheme synthase; Provisional; Region: cysG; PRK10637 547048000367 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 547048000368 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 547048000369 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 547048000370 active site 547048000371 SAM binding site [chemical binding]; other site 547048000372 homodimer interface [polypeptide binding]; other site 547048000373 nitrite transporter NirC; Provisional; Region: PRK11562 547048000374 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 547048000375 nitrite reductase subunit NirD; Provisional; Region: PRK14989 547048000376 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048000377 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 547048000378 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 547048000379 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 547048000380 cytosine deaminase; Provisional; Region: PRK09230 547048000381 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 547048000382 active site 547048000383 putative transporter; Provisional; Region: PRK03699 547048000384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048000385 putative substrate translocation pore; other site 547048000386 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 547048000387 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048000388 N-terminal plug; other site 547048000389 ligand-binding site [chemical binding]; other site 547048000390 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048000391 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048000392 DNA binding site [nucleotide binding] 547048000393 domain linker motif; other site 547048000394 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 547048000395 dimerization interface (closed form) [polypeptide binding]; other site 547048000396 ligand binding site [chemical binding]; other site 547048000397 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 547048000398 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 547048000399 NAD binding site [chemical binding]; other site 547048000400 sugar binding site [chemical binding]; other site 547048000401 divalent metal binding site [ion binding]; other site 547048000402 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547048000403 dimer interface [polypeptide binding]; other site 547048000404 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 547048000405 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 547048000406 substrate binding site [chemical binding]; other site 547048000407 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 547048000408 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 547048000409 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 547048000410 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 547048000411 glutamine binding [chemical binding]; other site 547048000412 catalytic triad [active] 547048000413 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 547048000414 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547048000415 inhibitor-cofactor binding pocket; inhibition site 547048000416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048000417 catalytic residue [active] 547048000418 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048000419 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 547048000420 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 547048000421 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 547048000422 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 547048000423 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 547048000424 ligand binding site [chemical binding]; other site 547048000425 flexible hinge region; other site 547048000426 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 547048000427 putative switch regulator; other site 547048000428 non-specific DNA interactions [nucleotide binding]; other site 547048000429 DNA binding site [nucleotide binding] 547048000430 sequence specific DNA binding site [nucleotide binding]; other site 547048000431 putative cAMP binding site [chemical binding]; other site 547048000432 hypothetical protein; Provisional; Region: PRK10738 547048000433 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048000434 phosphoribulokinase; Provisional; Region: PRK15453 547048000435 active site 547048000436 hypothetical protein; Provisional; Region: PRK04966 547048000437 putative hydrolase; Provisional; Region: PRK10985 547048000438 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 547048000439 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 547048000440 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048000441 substrate binding pocket [chemical binding]; other site 547048000442 membrane-bound complex binding site; other site 547048000443 hinge residues; other site 547048000444 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 547048000445 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 547048000446 Walker A/P-loop; other site 547048000447 ATP binding site [chemical binding]; other site 547048000448 Q-loop/lid; other site 547048000449 ABC transporter signature motif; other site 547048000450 Walker B; other site 547048000451 D-loop; other site 547048000452 H-loop/switch region; other site 547048000453 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 547048000454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048000455 dimer interface [polypeptide binding]; other site 547048000456 conserved gate region; other site 547048000457 putative PBP binding loops; other site 547048000458 ABC-ATPase subunit interface; other site 547048000459 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 547048000460 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 547048000461 active site 547048000462 iron coordination sites [ion binding]; other site 547048000463 substrate binding pocket [chemical binding]; other site 547048000464 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547048000465 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547048000466 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547048000467 putative glycosyl transferase; Provisional; Region: PRK10073 547048000468 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 547048000469 active site 547048000470 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 547048000471 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 547048000472 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 547048000473 TrkA-N domain; Region: TrkA_N; pfam02254 547048000474 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 547048000475 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 547048000476 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 547048000477 phi X174 lysis protein; Provisional; Region: PRK02793 547048000478 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 547048000479 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 547048000480 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 547048000481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 547048000482 YheO-like PAS domain; Region: PAS_6; pfam08348 547048000483 HTH domain; Region: HTH_22; pfam13309 547048000484 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 547048000485 sulfur relay protein TusC; Validated; Region: PRK00211 547048000486 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 547048000487 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 547048000488 S17 interaction site [polypeptide binding]; other site 547048000489 S8 interaction site; other site 547048000490 16S rRNA interaction site [nucleotide binding]; other site 547048000491 streptomycin interaction site [chemical binding]; other site 547048000492 23S rRNA interaction site [nucleotide binding]; other site 547048000493 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 547048000494 30S ribosomal protein S7; Validated; Region: PRK05302 547048000495 elongation factor G; Reviewed; Region: PRK00007 547048000496 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 547048000497 G1 box; other site 547048000498 putative GEF interaction site [polypeptide binding]; other site 547048000499 GTP/Mg2+ binding site [chemical binding]; other site 547048000500 Switch I region; other site 547048000501 G2 box; other site 547048000502 G3 box; other site 547048000503 Switch II region; other site 547048000504 G4 box; other site 547048000505 G5 box; other site 547048000506 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 547048000507 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 547048000508 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 547048000509 elongation factor Tu; Reviewed; Region: PRK00049 547048000510 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 547048000511 G1 box; other site 547048000512 GEF interaction site [polypeptide binding]; other site 547048000513 GTP/Mg2+ binding site [chemical binding]; other site 547048000514 Switch I region; other site 547048000515 G2 box; other site 547048000516 G3 box; other site 547048000517 Switch II region; other site 547048000518 G4 box; other site 547048000519 G5 box; other site 547048000520 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 547048000521 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 547048000522 Antibiotic Binding Site [chemical binding]; other site 547048000523 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048000524 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 547048000525 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 547048000526 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 547048000527 heme binding site [chemical binding]; other site 547048000528 ferroxidase pore; other site 547048000529 ferroxidase diiron center [ion binding]; other site 547048000530 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 547048000531 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 547048000532 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 547048000533 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 547048000534 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 547048000535 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 547048000536 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 547048000537 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 547048000538 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 547048000539 protein-rRNA interface [nucleotide binding]; other site 547048000540 putative translocon binding site; other site 547048000541 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 547048000542 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 547048000543 G-X-X-G motif; other site 547048000544 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 547048000545 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 547048000546 23S rRNA interface [nucleotide binding]; other site 547048000547 5S rRNA interface [nucleotide binding]; other site 547048000548 putative antibiotic binding site [chemical binding]; other site 547048000549 L25 interface [polypeptide binding]; other site 547048000550 L27 interface [polypeptide binding]; other site 547048000551 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 547048000552 23S rRNA interface [nucleotide binding]; other site 547048000553 putative translocon interaction site; other site 547048000554 signal recognition particle (SRP54) interaction site; other site 547048000555 L23 interface [polypeptide binding]; other site 547048000556 trigger factor interaction site; other site 547048000557 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 547048000558 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 547048000559 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 547048000560 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 547048000561 RNA binding site [nucleotide binding]; other site 547048000562 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 547048000563 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 547048000564 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 547048000565 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 547048000566 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 547048000567 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 547048000568 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 547048000569 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 547048000570 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 547048000571 5S rRNA interface [nucleotide binding]; other site 547048000572 23S rRNA interface [nucleotide binding]; other site 547048000573 L5 interface [polypeptide binding]; other site 547048000574 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 547048000575 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 547048000576 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 547048000577 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 547048000578 23S rRNA binding site [nucleotide binding]; other site 547048000579 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 547048000580 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 547048000581 SecY translocase; Region: SecY; pfam00344 547048000582 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 547048000583 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 547048000584 30S ribosomal protein S13; Region: bact_S13; TIGR03631 547048000585 30S ribosomal protein S11; Validated; Region: PRK05309 547048000586 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 547048000587 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 547048000588 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048000589 RNA binding surface [nucleotide binding]; other site 547048000590 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 547048000591 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 547048000592 alphaNTD homodimer interface [polypeptide binding]; other site 547048000593 alphaNTD - beta interaction site [polypeptide binding]; other site 547048000594 alphaNTD - beta' interaction site [polypeptide binding]; other site 547048000595 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 547048000596 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 547048000597 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 547048000598 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 547048000599 DNA binding residues [nucleotide binding] 547048000600 dimer interface [polypeptide binding]; other site 547048000601 metal binding site [ion binding]; metal-binding site 547048000602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 547048000603 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 547048000604 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 547048000605 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 547048000606 TrkA-N domain; Region: TrkA_N; pfam02254 547048000607 TrkA-C domain; Region: TrkA_C; pfam02080 547048000608 TrkA-N domain; Region: TrkA_N; pfam02254 547048000609 TrkA-C domain; Region: TrkA_C; pfam02080 547048000610 16S rRNA methyltransferase B; Provisional; Region: PRK10901 547048000611 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 547048000612 putative RNA binding site [nucleotide binding]; other site 547048000613 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048000614 S-adenosylmethionine binding site [chemical binding]; other site 547048000615 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 547048000616 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 547048000617 putative active site [active] 547048000618 substrate binding site [chemical binding]; other site 547048000619 putative cosubstrate binding site; other site 547048000620 catalytic site [active] 547048000621 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 547048000622 substrate binding site [chemical binding]; other site 547048000623 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 547048000624 active site 547048000625 catalytic residues [active] 547048000626 metal binding site [ion binding]; metal-binding site 547048000627 hypothetical protein; Provisional; Region: PRK10736 547048000628 DNA protecting protein DprA; Region: dprA; TIGR00732 547048000629 hypothetical protein; Validated; Region: PRK03430 547048000630 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 547048000631 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 547048000632 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 547048000633 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 547048000634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 547048000635 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 547048000636 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 547048000637 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 547048000638 shikimate binding site; other site 547048000639 NAD(P) binding site [chemical binding]; other site 547048000640 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 547048000641 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 547048000642 trimer interface [polypeptide binding]; other site 547048000643 putative metal binding site [ion binding]; other site 547048000644 transposase/IS protein; Provisional; Region: PRK09183 547048000645 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000646 Walker A motif; other site 547048000647 ATP binding site [chemical binding]; other site 547048000648 Walker B motif; other site 547048000649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048000650 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048000651 DNA-binding interface [nucleotide binding]; DNA binding site 547048000652 Integrase core domain; Region: rve; pfam00665 547048000653 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048000654 Coenzyme A binding pocket [chemical binding]; other site 547048000655 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 547048000656 AsmA family; Region: AsmA; pfam05170 547048000657 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 547048000658 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 547048000659 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 547048000660 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048000661 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 547048000662 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 547048000663 generic binding surface II; other site 547048000664 ssDNA binding site; other site 547048000665 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048000666 ATP binding site [chemical binding]; other site 547048000667 putative Mg++ binding site [ion binding]; other site 547048000668 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048000669 nucleotide binding region [chemical binding]; other site 547048000670 ATP-binding site [chemical binding]; other site 547048000671 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 547048000672 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 547048000673 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 547048000674 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 547048000675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547048000676 Zn2+ binding site [ion binding]; other site 547048000677 Mg2+ binding site [ion binding]; other site 547048000678 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 547048000679 synthetase active site [active] 547048000680 NTP binding site [chemical binding]; other site 547048000681 metal binding site [ion binding]; metal-binding site 547048000682 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 547048000683 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 547048000684 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 547048000685 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 547048000686 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 547048000687 catalytic site [active] 547048000688 G-X2-G-X-G-K; other site 547048000689 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 547048000690 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 547048000691 nucleotide binding pocket [chemical binding]; other site 547048000692 K-X-D-G motif; other site 547048000693 catalytic site [active] 547048000694 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 547048000695 Predicted membrane protein [Function unknown]; Region: COG2860 547048000696 UPF0126 domain; Region: UPF0126; pfam03458 547048000697 UPF0126 domain; Region: UPF0126; pfam03458 547048000698 hypothetical protein; Provisional; Region: PRK11820 547048000699 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 547048000700 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 547048000701 ribonuclease PH; Reviewed; Region: rph; PRK00173 547048000702 Ribonuclease PH; Region: RNase_PH_bact; cd11362 547048000703 hexamer interface [polypeptide binding]; other site 547048000704 active site 547048000705 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048000706 active site 547048000707 division inhibitor protein; Provisional; Region: slmA; PRK09480 547048000708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048000709 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 547048000710 trimer interface [polypeptide binding]; other site 547048000711 active site 547048000712 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 547048000713 Flavoprotein; Region: Flavoprotein; pfam02441 547048000714 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 547048000715 hypothetical protein; Reviewed; Region: PRK00024 547048000716 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 547048000717 MPN+ (JAMM) motif; other site 547048000718 Zinc-binding site [ion binding]; other site 547048000719 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 547048000720 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 547048000721 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 547048000722 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 547048000723 DNA binding site [nucleotide binding] 547048000724 catalytic residue [active] 547048000725 H2TH interface [polypeptide binding]; other site 547048000726 putative catalytic residues [active] 547048000727 turnover-facilitating residue; other site 547048000728 intercalation triad [nucleotide binding]; other site 547048000729 8OG recognition residue [nucleotide binding]; other site 547048000730 putative reading head residues; other site 547048000731 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 547048000732 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 547048000733 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 547048000734 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 547048000735 active site 547048000736 (T/H)XGH motif; other site 547048000737 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 547048000738 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 547048000739 putative metal binding site; other site 547048000740 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 547048000741 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 547048000742 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 547048000743 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547048000744 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 547048000745 putative active site [active] 547048000746 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 547048000747 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 547048000748 putative active site [active] 547048000749 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 547048000750 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 547048000751 NADP binding site [chemical binding]; other site 547048000752 homopentamer interface [polypeptide binding]; other site 547048000753 substrate binding site [chemical binding]; other site 547048000754 active site 547048000755 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 547048000756 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 547048000757 substrate-cofactor binding pocket; other site 547048000758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048000759 catalytic residue [active] 547048000760 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 547048000761 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 547048000762 NAD(P) binding site [chemical binding]; other site 547048000763 AmiB activator; Provisional; Region: PRK11637 547048000764 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048000765 phosphoglyceromutase; Provisional; Region: PRK05434 547048000766 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 547048000767 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 547048000768 active site residue [active] 547048000769 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 547048000770 GSH binding site [chemical binding]; other site 547048000771 catalytic residues [active] 547048000772 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 547048000773 SecA binding site; other site 547048000774 Preprotein binding site; other site 547048000775 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 547048000776 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 547048000777 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 547048000778 serine acetyltransferase; Provisional; Region: cysE; PRK11132 547048000779 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 547048000780 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 547048000781 trimer interface [polypeptide binding]; other site 547048000782 active site 547048000783 substrate binding site [chemical binding]; other site 547048000784 CoA binding site [chemical binding]; other site 547048000785 putative rRNA methylase; Provisional; Region: PRK10358 547048000786 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 547048000787 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 547048000788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048000789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048000790 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 547048000791 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 547048000792 DNA binding site [nucleotide binding] 547048000793 active site 547048000794 two-component sensor protein; Provisional; Region: cpxA; PRK09470 547048000795 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 547048000796 dimerization interface [polypeptide binding]; other site 547048000797 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048000798 dimer interface [polypeptide binding]; other site 547048000799 phosphorylation site [posttranslational modification] 547048000800 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048000801 ATP binding site [chemical binding]; other site 547048000802 Mg2+ binding site [ion binding]; other site 547048000803 G-X-G motif; other site 547048000804 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 547048000805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048000806 active site 547048000807 phosphorylation site [posttranslational modification] 547048000808 intermolecular recognition site; other site 547048000809 dimerization interface [polypeptide binding]; other site 547048000810 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048000811 DNA binding site [nucleotide binding] 547048000812 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 547048000813 dimer interface [polypeptide binding]; other site 547048000814 Uncharacterized conserved protein [Function unknown]; Region: COG5464 547048000815 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547048000816 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 547048000817 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 547048000818 6-phosphofructokinase; Provisional; Region: PRK03202 547048000819 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 547048000820 active site 547048000821 ADP/pyrophosphate binding site [chemical binding]; other site 547048000822 dimerization interface [polypeptide binding]; other site 547048000823 allosteric effector site; other site 547048000824 fructose-1,6-bisphosphate binding site; other site 547048000825 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048000826 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547048000827 substrate binding pocket [chemical binding]; other site 547048000828 membrane-bound complex binding site; other site 547048000829 hinge residues; other site 547048000830 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 547048000831 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048000832 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 547048000833 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 547048000834 transmembrane helices; other site 547048000835 hypothetical protein; Validated; Region: PRK06201 547048000836 hypothetical protein; Provisional; Region: PRK09262 547048000837 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 547048000838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048000839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048000840 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 547048000841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048000842 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048000843 dimerization interface [polypeptide binding]; other site 547048000844 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 547048000845 triosephosphate isomerase; Provisional; Region: PRK14567 547048000846 substrate binding site [chemical binding]; other site 547048000847 dimer interface [polypeptide binding]; other site 547048000848 catalytic triad [active] 547048000849 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 547048000850 Predicted membrane protein [Function unknown]; Region: COG3152 547048000851 ferredoxin-NADP reductase; Provisional; Region: PRK10926 547048000852 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 547048000853 FAD binding pocket [chemical binding]; other site 547048000854 FAD binding motif [chemical binding]; other site 547048000855 phosphate binding motif [ion binding]; other site 547048000856 beta-alpha-beta structure motif; other site 547048000857 NAD binding pocket [chemical binding]; other site 547048000858 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 547048000859 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 547048000860 putative active site [active] 547048000861 glycerol kinase; Provisional; Region: glpK; PRK00047 547048000862 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 547048000863 N- and C-terminal domain interface [polypeptide binding]; other site 547048000864 active site 547048000865 MgATP binding site [chemical binding]; other site 547048000866 catalytic site [active] 547048000867 metal binding site [ion binding]; metal-binding site 547048000868 glycerol binding site [chemical binding]; other site 547048000869 homotetramer interface [polypeptide binding]; other site 547048000870 homodimer interface [polypeptide binding]; other site 547048000871 FBP binding site [chemical binding]; other site 547048000872 protein IIAGlc interface [polypeptide binding]; other site 547048000873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 547048000874 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048000875 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 547048000876 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 547048000877 putative active site [active] 547048000878 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048000879 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 547048000880 Walker A/P-loop; other site 547048000881 ATP binding site [chemical binding]; other site 547048000882 Q-loop/lid; other site 547048000883 ABC transporter signature motif; other site 547048000884 Walker B; other site 547048000885 D-loop; other site 547048000886 H-loop/switch region; other site 547048000887 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 547048000888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048000889 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048000890 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 547048000891 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 547048000892 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 547048000893 UbiA prenyltransferase family; Region: UbiA; pfam01040 547048000894 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 547048000895 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048000896 Walker A motif; other site 547048000897 ATP binding site [chemical binding]; other site 547048000898 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 547048000899 Walker B motif; other site 547048000900 arginine finger; other site 547048000901 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547048000902 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 547048000903 active site 547048000904 HslU subunit interaction site [polypeptide binding]; other site 547048000905 Sporulation related domain; Region: SPOR; cl10051 547048000906 cell division protein FtsN; Provisional; Region: PRK12757 547048000907 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048000908 DNA binding site [nucleotide binding] 547048000909 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 547048000910 domain linker motif; other site 547048000911 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 547048000912 dimerization interface [polypeptide binding]; other site 547048000913 ligand binding site [chemical binding]; other site 547048000914 primosome assembly protein PriA; Validated; Region: PRK05580 547048000915 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048000916 ATP binding site [chemical binding]; other site 547048000917 putative Mg++ binding site [ion binding]; other site 547048000918 helicase superfamily c-terminal domain; Region: HELICc; smart00490 547048000919 ATP-binding site [chemical binding]; other site 547048000920 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 547048000921 Predicted membrane protein [Function unknown]; Region: COG4682 547048000922 yiaA/B two helix domain; Region: YiaAB; pfam05360 547048000923 yiaA/B two helix domain; Region: YiaAB; pfam05360 547048000924 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 547048000925 dimerization interface [polypeptide binding]; other site 547048000926 DNA binding site [nucleotide binding] 547048000927 corepressor binding sites; other site 547048000928 potential frameshift: common BLAST hit: gi|45439980|ref|NP_991519.1| cystathionine gamma-synthase 547048000929 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 547048000930 homodimer interface [polypeptide binding]; other site 547048000931 substrate-cofactor binding pocket; other site 547048000932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048000933 catalytic residue [active] 547048000934 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 547048000935 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 547048000936 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 547048000937 putative catalytic residues [active] 547048000938 putative nucleotide binding site [chemical binding]; other site 547048000939 putative aspartate binding site [chemical binding]; other site 547048000940 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 547048000941 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 547048000942 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 547048000943 FAD binding site [chemical binding]; other site 547048000944 putative transposase OrfB; Reviewed; Region: PHA02517 547048000945 HTH-like domain; Region: HTH_21; pfam13276 547048000946 Integrase core domain; Region: rve; pfam00665 547048000947 Integrase core domain; Region: rve_2; pfam13333 547048000948 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048000949 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048000950 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048000951 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 547048000952 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 547048000953 acetylornithine deacetylase; Provisional; Region: PRK05111 547048000954 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 547048000955 metal binding site [ion binding]; metal-binding site 547048000956 putative dimer interface [polypeptide binding]; other site 547048000957 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 547048000958 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 547048000959 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 547048000960 nucleotide binding site [chemical binding]; other site 547048000961 N-acetyl-L-glutamate binding site [chemical binding]; other site 547048000962 argininosuccinate lyase; Provisional; Region: PRK04833 547048000963 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 547048000964 active sites [active] 547048000965 tetramer interface [polypeptide binding]; other site 547048000966 Heme-binding protein A (HasA); Region: HasA; pfam06438 547048000967 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 547048000968 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 547048000969 Walker A/P-loop; other site 547048000970 ATP binding site [chemical binding]; other site 547048000971 Q-loop/lid; other site 547048000972 ABC transporter signature motif; other site 547048000973 Walker B; other site 547048000974 D-loop; other site 547048000975 H-loop/switch region; other site 547048000976 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 547048000977 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048000978 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048000979 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 547048000980 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 547048000981 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 547048000982 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048000983 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547048000984 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 547048000985 catalytic triad [active] 547048000986 dimer interface [polypeptide binding]; other site 547048000987 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 547048000988 GSH binding site [chemical binding]; other site 547048000989 catalytic residues [active] 547048000990 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 547048000991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048000992 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 547048000993 dimerization interface [polypeptide binding]; other site 547048000994 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 547048000995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048000996 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547048000997 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 547048000998 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048000999 hypothetical protein; Provisional; Region: PRK11056 547048001000 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 547048001001 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 547048001002 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048001003 N-terminal plug; other site 547048001004 ligand-binding site [chemical binding]; other site 547048001005 glutamate racemase; Provisional; Region: PRK00865 547048001006 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 547048001007 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 547048001008 putative ligand binding site [chemical binding]; other site 547048001009 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048001010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048001011 Walker A/P-loop; other site 547048001012 ATP binding site [chemical binding]; other site 547048001013 Q-loop/lid; other site 547048001014 ABC transporter signature motif; other site 547048001015 Walker B; other site 547048001016 D-loop; other site 547048001017 H-loop/switch region; other site 547048001018 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048001019 transcriptional regulator HdfR; Provisional; Region: PRK03601 547048001020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048001021 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 547048001022 dimerization interface [polypeptide binding]; other site 547048001023 hypothetical protein; Provisional; Region: PRK11027 547048001024 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 547048001025 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 547048001026 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 547048001027 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 547048001028 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 547048001029 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 547048001030 PYR/PP interface [polypeptide binding]; other site 547048001031 dimer interface [polypeptide binding]; other site 547048001032 TPP binding site [chemical binding]; other site 547048001033 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 547048001034 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 547048001035 TPP-binding site [chemical binding]; other site 547048001036 dimer interface [polypeptide binding]; other site 547048001037 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 547048001038 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 547048001039 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 547048001040 homodimer interface [polypeptide binding]; other site 547048001041 substrate-cofactor binding pocket; other site 547048001042 catalytic residue [active] 547048001043 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 547048001044 threonine dehydratase; Reviewed; Region: PRK09224 547048001045 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 547048001046 tetramer interface [polypeptide binding]; other site 547048001047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048001048 catalytic residue [active] 547048001049 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 547048001050 putative Ile/Val binding site [chemical binding]; other site 547048001051 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 547048001052 putative Ile/Val binding site [chemical binding]; other site 547048001053 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048001054 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048001055 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048001056 conserved hypothetical protein; Region: TIGR03034 547048001057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048001058 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 547048001059 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 547048001060 putative dimerization interface [polypeptide binding]; other site 547048001061 ketol-acid reductoisomerase; Validated; Region: PRK05225 547048001062 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 547048001063 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 547048001064 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 547048001065 S-type Pyocin; Region: Pyocin_S; pfam06958 547048001066 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 547048001067 active site 547048001068 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 547048001069 cystathionine beta-lyase; Provisional; Region: PRK09028 547048001070 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048001071 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048001072 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048001073 Fimbrial protein; Region: Fimbrial; cl01416 547048001074 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048001075 PapC N-terminal domain; Region: PapC_N; pfam13954 547048001076 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048001077 PapC C-terminal domain; Region: PapC_C; pfam13953 547048001078 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048001079 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048001080 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048001081 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048001082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048001083 MULE transposase domain; Region: MULE; pfam10551 547048001084 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 547048001085 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 547048001086 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 547048001087 Part of AAA domain; Region: AAA_19; pfam13245 547048001088 Family description; Region: UvrD_C_2; pfam13538 547048001089 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 547048001090 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547048001091 ATP binding site [chemical binding]; other site 547048001092 Mg++ binding site [ion binding]; other site 547048001093 motif III; other site 547048001094 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048001095 nucleotide binding region [chemical binding]; other site 547048001096 ATP-binding site [chemical binding]; other site 547048001097 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 547048001098 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547048001099 catalytic residues [active] 547048001100 transcription termination factor Rho; Provisional; Region: rho; PRK09376 547048001101 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 547048001102 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 547048001103 RNA binding site [nucleotide binding]; other site 547048001104 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 547048001105 multimer interface [polypeptide binding]; other site 547048001106 Walker A motif; other site 547048001107 ATP binding site [chemical binding]; other site 547048001108 Walker B motif; other site 547048001109 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 547048001110 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 547048001111 Mg++ binding site [ion binding]; other site 547048001112 putative catalytic motif [active] 547048001113 substrate binding site [chemical binding]; other site 547048001114 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 547048001115 Chain length determinant protein; Region: Wzz; cl15801 547048001116 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 547048001117 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 547048001118 active site 547048001119 homodimer interface [polypeptide binding]; other site 547048001120 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 547048001121 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 547048001122 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 547048001123 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 547048001124 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 547048001125 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 547048001126 NAD binding site [chemical binding]; other site 547048001127 substrate binding site [chemical binding]; other site 547048001128 homodimer interface [polypeptide binding]; other site 547048001129 active site 547048001130 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 547048001131 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 547048001132 substrate binding site; other site 547048001133 tetramer interface; other site 547048001134 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 547048001135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048001136 Coenzyme A binding pocket [chemical binding]; other site 547048001137 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 547048001138 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 547048001139 inhibitor-cofactor binding pocket; inhibition site 547048001140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048001141 catalytic residue [active] 547048001142 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 547048001143 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 547048001144 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 547048001145 putative common antigen polymerase; Provisional; Region: PRK02975 547048001146 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 547048001147 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 547048001148 putative transport protein YifK; Provisional; Region: PRK10746 547048001149 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048001150 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 547048001151 HemY protein N-terminus; Region: HemY_N; pfam07219 547048001152 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 547048001153 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 547048001154 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 547048001155 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 547048001156 active site 547048001157 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 547048001158 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 547048001159 domain interfaces; other site 547048001160 active site 547048001161 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 547048001162 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 547048001163 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 547048001164 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048001165 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 547048001166 putative iron binding site [ion binding]; other site 547048001167 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 547048001168 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 547048001169 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 547048001170 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 547048001171 hypothetical protein; Provisional; Region: PRK10963 547048001172 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 547048001173 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048001174 active site 547048001175 DNA binding site [nucleotide binding] 547048001176 Int/Topo IB signature motif; other site 547048001177 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 547048001178 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048001179 motif II; other site 547048001180 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 547048001181 Part of AAA domain; Region: AAA_19; pfam13245 547048001182 Family description; Region: UvrD_C_2; pfam13538 547048001183 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547048001184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048001185 Uncharacterized conserved protein [Function unknown]; Region: COG5441 547048001186 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 547048001187 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 547048001188 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 547048001189 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 547048001190 Cl binding site [ion binding]; other site 547048001191 oligomer interface [polypeptide binding]; other site 547048001192 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 547048001193 EamA-like transporter family; Region: EamA; cl17759 547048001194 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 547048001195 CoenzymeA binding site [chemical binding]; other site 547048001196 subunit interaction site [polypeptide binding]; other site 547048001197 PHB binding site; other site 547048001198 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 547048001199 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048001200 ATP binding site [chemical binding]; other site 547048001201 putative Mg++ binding site [ion binding]; other site 547048001202 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048001203 nucleotide binding region [chemical binding]; other site 547048001204 ATP-binding site [chemical binding]; other site 547048001205 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 547048001206 HRDC domain; Region: HRDC; pfam00570 547048001207 threonine efflux system; Provisional; Region: PRK10229 547048001208 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 547048001209 lysophospholipase L2; Provisional; Region: PRK10749 547048001210 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 547048001211 putative hydrolase; Provisional; Region: PRK10976 547048001212 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048001213 active site 547048001214 motif I; other site 547048001215 motif II; other site 547048001216 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 547048001217 Viral enhancin protein; Region: Enhancin; pfam03272 547048001218 Viral enhancin protein; Region: Enhancin; pfam03272 547048001219 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 547048001220 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 547048001221 active site 547048001222 catalytic site [active] 547048001223 metal binding site [ion binding]; metal-binding site 547048001224 hypothetical protein; Provisional; Region: PRK11615 547048001225 hypothetical protein; Provisional; Region: PRK11212 547048001226 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 547048001227 CPxP motif; other site 547048001228 potential frameshift: common BLAST hit: gi|294505484|ref|YP_003569546.1| putative P-type cation-translocating membrane ATPase 547048001229 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048001230 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 547048001231 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048001232 motif II; other site 547048001233 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547048001234 metal-binding site [ion binding] 547048001235 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048001236 Predicted membrane protein [Function unknown]; Region: COG3714 547048001237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4517 547048001238 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 547048001239 hypothetical protein; Provisional; Region: PRK10910 547048001240 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 547048001241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048001242 S-adenosylmethionine binding site [chemical binding]; other site 547048001243 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 547048001244 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 547048001245 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 547048001246 P loop; other site 547048001247 GTP binding site [chemical binding]; other site 547048001248 cell division protein FtsE; Provisional; Region: PRK10908 547048001249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048001250 Walker A/P-loop; other site 547048001251 ATP binding site [chemical binding]; other site 547048001252 Q-loop/lid; other site 547048001253 ABC transporter signature motif; other site 547048001254 Walker B; other site 547048001255 D-loop; other site 547048001256 H-loop/switch region; other site 547048001257 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 547048001258 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 547048001259 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 547048001260 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547048001261 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 547048001262 DNA binding residues [nucleotide binding] 547048001263 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048001264 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 547048001265 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 547048001266 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 547048001267 dimerization interface [polypeptide binding]; other site 547048001268 ligand binding site [chemical binding]; other site 547048001269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048001270 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 547048001271 TM-ABC transporter signature motif; other site 547048001272 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 547048001273 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 547048001274 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 547048001275 TM-ABC transporter signature motif; other site 547048001276 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 547048001277 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 547048001278 Walker A/P-loop; other site 547048001279 ATP binding site [chemical binding]; other site 547048001280 Q-loop/lid; other site 547048001281 ABC transporter signature motif; other site 547048001282 Walker B; other site 547048001283 D-loop; other site 547048001284 H-loop/switch region; other site 547048001285 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 547048001286 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 547048001287 Walker A/P-loop; other site 547048001288 ATP binding site [chemical binding]; other site 547048001289 Q-loop/lid; other site 547048001290 ABC transporter signature motif; other site 547048001291 Walker B; other site 547048001292 D-loop; other site 547048001293 H-loop/switch region; other site 547048001294 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048001295 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048001296 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 547048001297 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 547048001298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048001299 dimer interface [polypeptide binding]; other site 547048001300 conserved gate region; other site 547048001301 putative PBP binding loops; other site 547048001302 ABC-ATPase subunit interface; other site 547048001303 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048001304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048001305 dimer interface [polypeptide binding]; other site 547048001306 conserved gate region; other site 547048001307 putative PBP binding loops; other site 547048001308 ABC-ATPase subunit interface; other site 547048001309 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 547048001310 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048001311 Walker A/P-loop; other site 547048001312 ATP binding site [chemical binding]; other site 547048001313 Q-loop/lid; other site 547048001314 ABC transporter signature motif; other site 547048001315 Walker B; other site 547048001316 D-loop; other site 547048001317 H-loop/switch region; other site 547048001318 TOBE domain; Region: TOBE_2; pfam08402 547048001319 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 547048001320 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 547048001321 putative active site [active] 547048001322 catalytic site [active] 547048001323 putative metal binding site [ion binding]; other site 547048001324 Predicted permeases [General function prediction only]; Region: COG0679 547048001325 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 547048001326 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 547048001327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048001328 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 547048001329 putative dimerization interface [polypeptide binding]; other site 547048001330 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 547048001331 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 547048001332 THF binding site; other site 547048001333 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 547048001334 substrate binding site [chemical binding]; other site 547048001335 THF binding site; other site 547048001336 zinc-binding site [ion binding]; other site 547048001337 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 547048001338 Ribosome-binding factor A; Region: RBFA; cl00542 547048001339 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 547048001340 uridine phosphorylase; Provisional; Region: PRK11178 547048001341 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 547048001342 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 547048001343 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 547048001344 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 547048001345 Carbon starvation protein CstA; Region: CstA; pfam02554 547048001346 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 547048001347 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 547048001348 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 547048001349 RmuC family; Region: RmuC; pfam02646 547048001350 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 547048001351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048001352 S-adenosylmethionine binding site [chemical binding]; other site 547048001353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 547048001354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 547048001355 SCP-2 sterol transfer family; Region: SCP2; pfam02036 547048001356 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 547048001357 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 547048001358 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 547048001359 sec-independent translocase; Provisional; Region: PRK01770 547048001360 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 547048001361 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 547048001362 active site 547048001363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048001364 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048001365 DNA-binding interface [nucleotide binding]; DNA binding site 547048001366 Integrase core domain; Region: rve; pfam00665 547048001367 transposase/IS protein; Provisional; Region: PRK09183 547048001368 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048001369 Walker A motif; other site 547048001370 ATP binding site [chemical binding]; other site 547048001371 Walker B motif; other site 547048001372 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 547048001373 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 547048001374 dimer interface [polypeptide binding]; other site 547048001375 allosteric magnesium binding site [ion binding]; other site 547048001376 active site 547048001377 aspartate-rich active site metal binding site; other site 547048001378 Schiff base residues; other site 547048001379 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 547048001380 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 547048001381 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 547048001382 heterodimer interface [polypeptide binding]; other site 547048001383 homodimer interface [polypeptide binding]; other site 547048001384 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 547048001385 FMN reductase; Validated; Region: fre; PRK08051 547048001386 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 547048001387 FAD binding pocket [chemical binding]; other site 547048001388 FAD binding motif [chemical binding]; other site 547048001389 phosphate binding motif [ion binding]; other site 547048001390 beta-alpha-beta structure motif; other site 547048001391 NAD binding pocket [chemical binding]; other site 547048001392 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 547048001393 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 547048001394 dimer interface [polypeptide binding]; other site 547048001395 active site 547048001396 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 547048001397 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 547048001398 substrate binding site [chemical binding]; other site 547048001399 oxyanion hole (OAH) forming residues; other site 547048001400 trimer interface [polypeptide binding]; other site 547048001401 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 547048001402 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 547048001403 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 547048001404 proline dipeptidase; Provisional; Region: PRK13607 547048001405 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 547048001406 active site 547048001407 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 547048001408 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048001409 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 547048001410 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 547048001411 potassium transporter; Provisional; Region: PRK10750 547048001412 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 547048001413 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 547048001414 pantothenate kinase; Provisional; Region: PRK05439 547048001415 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 547048001416 ATP-binding site [chemical binding]; other site 547048001417 CoA-binding site [chemical binding]; other site 547048001418 Mg2+-binding site [ion binding]; other site 547048001419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048001420 Coenzyme A binding pocket [chemical binding]; other site 547048001421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048001422 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048001423 DNA-binding interface [nucleotide binding]; DNA binding site 547048001424 Integrase core domain; Region: rve; pfam00665 547048001425 transposase/IS protein; Provisional; Region: PRK09183 547048001426 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048001427 Walker A motif; other site 547048001428 ATP binding site [chemical binding]; other site 547048001429 Walker B motif; other site 547048001430 elongation factor Tu; Reviewed; Region: PRK00049 547048001431 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 547048001432 G1 box; other site 547048001433 GEF interaction site [polypeptide binding]; other site 547048001434 GTP/Mg2+ binding site [chemical binding]; other site 547048001435 Switch I region; other site 547048001436 G2 box; other site 547048001437 G3 box; other site 547048001438 Switch II region; other site 547048001439 G4 box; other site 547048001440 G5 box; other site 547048001441 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 547048001442 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 547048001443 Antibiotic Binding Site [chemical binding]; other site 547048001444 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 547048001445 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 547048001446 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 547048001447 putative homodimer interface [polypeptide binding]; other site 547048001448 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 547048001449 heterodimer interface [polypeptide binding]; other site 547048001450 homodimer interface [polypeptide binding]; other site 547048001451 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 547048001452 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 547048001453 23S rRNA interface [nucleotide binding]; other site 547048001454 L7/L12 interface [polypeptide binding]; other site 547048001455 putative thiostrepton binding site; other site 547048001456 L25 interface [polypeptide binding]; other site 547048001457 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 547048001458 mRNA/rRNA interface [nucleotide binding]; other site 547048001459 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 547048001460 23S rRNA interface [nucleotide binding]; other site 547048001461 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 547048001462 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 547048001463 core dimer interface [polypeptide binding]; other site 547048001464 peripheral dimer interface [polypeptide binding]; other site 547048001465 L10 interface [polypeptide binding]; other site 547048001466 L11 interface [polypeptide binding]; other site 547048001467 putative EF-Tu interaction site [polypeptide binding]; other site 547048001468 putative EF-G interaction site [polypeptide binding]; other site 547048001469 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 547048001470 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 547048001471 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 547048001472 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 547048001473 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 547048001474 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 547048001475 RPB3 interaction site [polypeptide binding]; other site 547048001476 RPB1 interaction site [polypeptide binding]; other site 547048001477 RPB11 interaction site [polypeptide binding]; other site 547048001478 RPB10 interaction site [polypeptide binding]; other site 547048001479 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 547048001480 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 547048001481 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 547048001482 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 547048001483 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 547048001484 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 547048001485 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 547048001486 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 547048001487 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 547048001488 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 547048001489 DNA binding site [nucleotide binding] 547048001490 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 547048001491 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048001492 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 547048001493 thiS-thiF/thiG interaction site; other site 547048001494 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 547048001495 ThiC-associated domain; Region: ThiC-associated; pfam13667 547048001496 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 547048001497 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 547048001498 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 547048001499 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 547048001500 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 547048001501 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 547048001502 putative NADH binding site [chemical binding]; other site 547048001503 putative active site [active] 547048001504 nudix motif; other site 547048001505 putative metal binding site [ion binding]; other site 547048001506 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 547048001507 substrate binding site [chemical binding]; other site 547048001508 active site 547048001509 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 547048001510 Active_site [active] 547048001511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 547048001512 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 547048001513 IHF dimer interface [polypeptide binding]; other site 547048001514 IHF - DNA interface [nucleotide binding]; other site 547048001515 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 547048001516 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 547048001517 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 547048001518 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 547048001519 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 547048001520 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 547048001521 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 547048001522 purine monophosphate binding site [chemical binding]; other site 547048001523 dimer interface [polypeptide binding]; other site 547048001524 putative catalytic residues [active] 547048001525 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 547048001526 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 547048001527 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048001528 DNA-binding interface [nucleotide binding]; DNA binding site 547048001529 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 547048001530 HTH-like domain; Region: HTH_21; pfam13276 547048001531 Integrase core domain; Region: rve; pfam00665 547048001532 Integrase core domain; Region: rve_3; pfam13683 547048001533 transposase/IS protein; Provisional; Region: PRK09183 547048001534 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048001535 Walker A motif; other site 547048001536 ATP binding site [chemical binding]; other site 547048001537 Walker B motif; other site 547048001538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048001539 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048001540 DNA-binding interface [nucleotide binding]; DNA binding site 547048001541 Integrase core domain; Region: rve; pfam00665 547048001542 acyl-CoA synthetase; Validated; Region: PRK05850 547048001543 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 547048001544 acyl-activating enzyme (AAE) consensus motif; other site 547048001545 active site 547048001546 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 547048001547 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 547048001548 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 547048001549 active site 547048001550 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 547048001551 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048001552 N-terminal plug; other site 547048001553 ligand-binding site [chemical binding]; other site 547048001554 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 547048001555 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 547048001556 metal binding site [ion binding]; metal-binding site 547048001557 dimer interface [polypeptide binding]; other site 547048001558 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 547048001559 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 547048001560 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 547048001561 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 547048001562 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 547048001563 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048001564 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 547048001565 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 547048001566 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 547048001567 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 547048001568 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547048001569 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048001570 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048001571 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3322 547048001572 PAS domain S-box; Region: sensory_box; TIGR00229 547048001573 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048001574 putative active site [active] 547048001575 heme pocket [chemical binding]; other site 547048001576 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547048001577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048001578 metal binding site [ion binding]; metal-binding site 547048001579 active site 547048001580 I-site; other site 547048001581 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048001582 putative transposase OrfB; Reviewed; Region: PHA02517 547048001583 HTH-like domain; Region: HTH_21; pfam13276 547048001584 Integrase core domain; Region: rve; pfam00665 547048001585 Integrase core domain; Region: rve_2; pfam13333 547048001586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048001587 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048001588 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048001589 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 547048001590 16S/18S rRNA binding site [nucleotide binding]; other site 547048001591 S13e-L30e interaction site [polypeptide binding]; other site 547048001592 25S rRNA binding site [nucleotide binding]; other site 547048001593 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 547048001594 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 547048001595 RNA binding site [nucleotide binding]; other site 547048001596 active site 547048001597 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 547048001598 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 547048001599 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 547048001600 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 547048001601 translation initiation factor IF-2; Validated; Region: infB; PRK05306 547048001602 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 547048001603 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 547048001604 G1 box; other site 547048001605 putative GEF interaction site [polypeptide binding]; other site 547048001606 GTP/Mg2+ binding site [chemical binding]; other site 547048001607 Switch I region; other site 547048001608 G2 box; other site 547048001609 G3 box; other site 547048001610 Switch II region; other site 547048001611 G4 box; other site 547048001612 G5 box; other site 547048001613 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 547048001614 Translation-initiation factor 2; Region: IF-2; pfam11987 547048001615 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 547048001616 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 547048001617 NusA N-terminal domain; Region: NusA_N; pfam08529 547048001618 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 547048001619 RNA binding site [nucleotide binding]; other site 547048001620 homodimer interface [polypeptide binding]; other site 547048001621 NusA-like KH domain; Region: KH_5; pfam13184 547048001622 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 547048001623 G-X-X-G motif; other site 547048001624 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 547048001625 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 547048001626 ribosome maturation protein RimP; Reviewed; Region: PRK00092 547048001627 Sm and related proteins; Region: Sm_like; cl00259 547048001628 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 547048001629 putative oligomer interface [polypeptide binding]; other site 547048001630 putative RNA binding site [nucleotide binding]; other site 547048001631 Preprotein translocase SecG subunit; Region: SecG; pfam03840 547048001632 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 547048001633 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 547048001634 active site 547048001635 substrate binding site [chemical binding]; other site 547048001636 metal binding site [ion binding]; metal-binding site 547048001637 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 547048001638 dihydropteroate synthase; Region: DHPS; TIGR01496 547048001639 substrate binding pocket [chemical binding]; other site 547048001640 dimer interface [polypeptide binding]; other site 547048001641 inhibitor binding site; inhibition site 547048001642 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 547048001643 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048001644 Walker A motif; other site 547048001645 ATP binding site [chemical binding]; other site 547048001646 Walker B motif; other site 547048001647 arginine finger; other site 547048001648 Peptidase family M41; Region: Peptidase_M41; pfam01434 547048001649 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 547048001650 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048001651 S-adenosylmethionine binding site [chemical binding]; other site 547048001652 RNA-binding protein YhbY; Provisional; Region: PRK10343 547048001653 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 547048001654 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 547048001655 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 547048001656 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 547048001657 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 547048001658 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 547048001659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048001660 active site 547048001661 phosphorylation site [posttranslational modification] 547048001662 intermolecular recognition site; other site 547048001663 dimerization interface [polypeptide binding]; other site 547048001664 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048001665 DNA binding site [nucleotide binding] 547048001666 sensor protein BasS/PmrB; Provisional; Region: PRK10755 547048001667 HAMP domain; Region: HAMP; pfam00672 547048001668 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048001669 dimer interface [polypeptide binding]; other site 547048001670 phosphorylation site [posttranslational modification] 547048001671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048001672 ATP binding site [chemical binding]; other site 547048001673 Mg2+ binding site [ion binding]; other site 547048001674 G-X-G motif; other site 547048001675 GTPase CgtA; Reviewed; Region: obgE; PRK12298 547048001676 GTP1/OBG; Region: GTP1_OBG; pfam01018 547048001677 Obg GTPase; Region: Obg; cd01898 547048001678 G1 box; other site 547048001679 GTP/Mg2+ binding site [chemical binding]; other site 547048001680 Switch I region; other site 547048001681 G2 box; other site 547048001682 G3 box; other site 547048001683 Switch II region; other site 547048001684 G4 box; other site 547048001685 G5 box; other site 547048001686 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 547048001687 EamA-like transporter family; Region: EamA; pfam00892 547048001688 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 547048001689 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 547048001690 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 547048001691 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 547048001692 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 547048001693 substrate binding pocket [chemical binding]; other site 547048001694 chain length determination region; other site 547048001695 substrate-Mg2+ binding site; other site 547048001696 catalytic residues [active] 547048001697 aspartate-rich region 1; other site 547048001698 active site lid residues [active] 547048001699 aspartate-rich region 2; other site 547048001700 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 547048001701 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 547048001702 malate dehydrogenase; Provisional; Region: PRK05086 547048001703 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 547048001704 NAD binding site [chemical binding]; other site 547048001705 dimerization interface [polypeptide binding]; other site 547048001706 Substrate binding site [chemical binding]; other site 547048001707 arginine repressor; Provisional; Region: PRK05066 547048001708 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 547048001709 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 547048001710 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 547048001711 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048001712 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 547048001713 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547048001714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547048001715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048001716 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 547048001717 AMP binding site [chemical binding]; other site 547048001718 metal binding site [ion binding]; metal-binding site 547048001719 active site 547048001720 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 547048001721 dimer interface [polypeptide binding]; other site 547048001722 substrate binding site [chemical binding]; other site 547048001723 metal binding sites [ion binding]; metal-binding site 547048001724 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 547048001725 putative active site pocket [active] 547048001726 dimerization interface [polypeptide binding]; other site 547048001727 putative catalytic residue [active] 547048001728 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 547048001729 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048001730 Surface antigen; Region: Bac_surface_Ag; pfam01103 547048001731 methionine sulfoxide reductase A; Provisional; Region: PRK00058 547048001732 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 547048001733 Domain of unknown function DUF21; Region: DUF21; pfam01595 547048001734 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 547048001735 Transporter associated domain; Region: CorC_HlyC; smart01091 547048001736 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 547048001737 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 547048001738 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 547048001739 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 547048001740 active site 547048001741 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 547048001742 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 547048001743 active site 547048001744 metal binding site [ion binding]; metal-binding site 547048001745 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 547048001746 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 547048001747 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 547048001748 Hemerythrin-like domain; Region: Hr-like; cd12108 547048001749 Fe binding site [ion binding]; other site 547048001750 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 547048001751 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 547048001752 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 547048001753 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 547048001754 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 547048001755 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 547048001756 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048001757 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 547048001758 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 547048001759 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 547048001760 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 547048001761 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 547048001762 dimer interface [polypeptide binding]; other site 547048001763 ssDNA binding site [nucleotide binding]; other site 547048001764 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547048001765 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 547048001766 Predicted esterase [General function prediction only]; Region: COG0400 547048001767 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547048001768 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048001769 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048001770 DNA-binding interface [nucleotide binding]; DNA binding site 547048001771 Integrase core domain; Region: rve; pfam00665 547048001772 transposase/IS protein; Provisional; Region: PRK09183 547048001773 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048001774 Walker A motif; other site 547048001775 ATP binding site [chemical binding]; other site 547048001776 Walker B motif; other site 547048001777 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 547048001778 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 547048001779 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 547048001780 active site 547048001781 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048001782 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 547048001783 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 547048001784 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 547048001785 exoribonuclease R; Provisional; Region: PRK11642 547048001786 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 547048001787 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 547048001788 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 547048001789 RNB domain; Region: RNB; pfam00773 547048001790 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 547048001791 RNA binding site [nucleotide binding]; other site 547048001792 transcriptional repressor NsrR; Provisional; Region: PRK11014 547048001793 Rrf2 family protein; Region: rrf2_super; TIGR00738 547048001794 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 547048001795 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 547048001796 GDP-binding site [chemical binding]; other site 547048001797 ACT binding site; other site 547048001798 IMP binding site; other site 547048001799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 547048001800 FtsH protease regulator HflC; Provisional; Region: PRK11029 547048001801 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 547048001802 FtsH protease regulator HflK; Provisional; Region: PRK10930 547048001803 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 547048001804 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 547048001805 GTPase HflX; Provisional; Region: PRK11058 547048001806 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 547048001807 HflX GTPase family; Region: HflX; cd01878 547048001808 G1 box; other site 547048001809 GTP/Mg2+ binding site [chemical binding]; other site 547048001810 Switch I region; other site 547048001811 G2 box; other site 547048001812 G3 box; other site 547048001813 Switch II region; other site 547048001814 G4 box; other site 547048001815 G5 box; other site 547048001816 bacterial Hfq-like; Region: Hfq; cd01716 547048001817 hexamer interface [polypeptide binding]; other site 547048001818 Sm1 motif; other site 547048001819 RNA binding site [nucleotide binding]; other site 547048001820 Sm2 motif; other site 547048001821 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 547048001822 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 547048001823 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 547048001824 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048001825 ATP binding site [chemical binding]; other site 547048001826 Mg2+ binding site [ion binding]; other site 547048001827 G-X-G motif; other site 547048001828 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 547048001829 ATP binding site [chemical binding]; other site 547048001830 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 547048001831 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 547048001832 AMIN domain; Region: AMIN; pfam11741 547048001833 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 547048001834 active site 547048001835 metal binding site [ion binding]; metal-binding site 547048001836 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 547048001837 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048001838 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 547048001839 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048001840 ADP-binding protein; Provisional; Region: PRK10646 547048001841 putative carbohydrate kinase; Provisional; Region: PRK10565 547048001842 Uncharacterized conserved protein [Function unknown]; Region: COG0062 547048001843 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 547048001844 putative substrate binding site [chemical binding]; other site 547048001845 putative ATP binding site [chemical binding]; other site 547048001846 epoxyqueuosine reductase; Region: TIGR00276 547048001847 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 547048001848 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 547048001849 catalytic site [active] 547048001850 putative active site [active] 547048001851 putative substrate binding site [chemical binding]; other site 547048001852 dimer interface [polypeptide binding]; other site 547048001853 GTPase RsgA; Reviewed; Region: PRK12288 547048001854 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 547048001855 RNA binding site [nucleotide binding]; other site 547048001856 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 547048001857 GTPase/Zn-binding domain interface [polypeptide binding]; other site 547048001858 GTP/Mg2+ binding site [chemical binding]; other site 547048001859 G4 box; other site 547048001860 G5 box; other site 547048001861 G1 box; other site 547048001862 Switch I region; other site 547048001863 G2 box; other site 547048001864 G3 box; other site 547048001865 Switch II region; other site 547048001866 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 547048001867 putative mechanosensitive channel protein; Provisional; Region: PRK10929 547048001868 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 547048001869 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547048001870 poxB regulator PoxA; Provisional; Region: PRK09350 547048001871 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 547048001872 motif 1; other site 547048001873 dimer interface [polypeptide binding]; other site 547048001874 active site 547048001875 motif 2; other site 547048001876 motif 3; other site 547048001877 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 547048001878 L-aspartate oxidase; Provisional; Region: PRK06175 547048001879 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 547048001880 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 547048001881 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048001882 catalytic loop [active] 547048001883 iron binding site [ion binding]; other site 547048001884 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 547048001885 D-subunit interface [polypeptide binding]; other site 547048001886 Iron-sulfur protein interface; other site 547048001887 proximal quinone binding site [chemical binding]; other site 547048001888 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 547048001889 Iron-sulfur protein interface; other site 547048001890 proximal quinone binding site [chemical binding]; other site 547048001891 C-subunit interface; other site 547048001892 distal quinone binding site; other site 547048001893 multidrug efflux system protein; Provisional; Region: PRK11431 547048001894 elongation factor P; Validated; Region: PRK00529 547048001895 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 547048001896 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 547048001897 RNA binding site [nucleotide binding]; other site 547048001898 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 547048001899 RNA binding site [nucleotide binding]; other site 547048001900 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 547048001901 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048001902 FeS/SAM binding site; other site 547048001903 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 547048001904 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 547048001905 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 547048001906 ring oligomerisation interface [polypeptide binding]; other site 547048001907 ATP/Mg binding site [chemical binding]; other site 547048001908 stacking interactions; other site 547048001909 hinge regions; other site 547048001910 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 547048001911 oligomerisation interface [polypeptide binding]; other site 547048001912 mobile loop; other site 547048001913 roof hairpin; other site 547048001914 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 547048001915 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 547048001916 Aspartase; Region: Aspartase; cd01357 547048001917 active sites [active] 547048001918 tetramer interface [polypeptide binding]; other site 547048001919 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 547048001920 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 547048001921 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 547048001922 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 547048001923 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 547048001924 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 547048001925 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 547048001926 DsbD alpha interface [polypeptide binding]; other site 547048001927 catalytic residues [active] 547048001928 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 547048001929 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 547048001930 [4Fe-4S] binding site [ion binding]; other site 547048001931 molybdopterin cofactor binding site; other site 547048001932 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 547048001933 molybdopterin cofactor binding site; other site 547048001934 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 547048001935 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 547048001936 4Fe-4S binding domain; Region: Fer4; pfam00037 547048001937 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547048001938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048001939 putative transcriptional regulator; Provisional; Region: PRK11640 547048001940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048001941 Viral enhancin protein; Region: Enhancin; pfam03272 547048001942 Peptidase M60-like family; Region: M60-like; pfam13402 547048001943 subtilase cytotoxin subunit B-like protein; Provisional; Region: PRK15265; cl14664 547048001944 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 547048001945 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 547048001946 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 547048001947 transcriptional activator RhaR; Provisional; Region: PRK13501 547048001948 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 547048001949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048001950 transcriptional activator RhaS; Provisional; Region: PRK13503 547048001951 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 547048001952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048001953 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 547048001954 N- and C-terminal domain interface [polypeptide binding]; other site 547048001955 active site 547048001956 putative catalytic site [active] 547048001957 metal binding site [ion binding]; metal-binding site 547048001958 ATP binding site [chemical binding]; other site 547048001959 rhamnulokinase; Provisional; Region: rhaB; PRK10640 547048001960 carbohydrate binding site [chemical binding]; other site 547048001961 L-rhamnose isomerase; Provisional; Region: PRK01076 547048001962 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 547048001963 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 547048001964 intersubunit interface [polypeptide binding]; other site 547048001965 active site 547048001966 Zn2+ binding site [ion binding]; other site 547048001967 lactaldehyde reductase; Region: lactal_redase; TIGR02638 547048001968 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 547048001969 dimer interface [polypeptide binding]; other site 547048001970 active site 547048001971 metal binding site [ion binding]; metal-binding site 547048001972 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 547048001973 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 547048001974 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 547048001975 dimer interface [polypeptide binding]; other site 547048001976 ssDNA binding site [nucleotide binding]; other site 547048001977 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547048001978 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 547048001979 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 547048001980 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 547048001981 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 547048001982 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 547048001983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 547048001984 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 547048001985 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048001986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048001987 homodimer interface [polypeptide binding]; other site 547048001988 catalytic residue [active] 547048001989 alanine racemase; Reviewed; Region: alr; PRK00053 547048001990 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 547048001991 active site 547048001992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547048001993 substrate binding site [chemical binding]; other site 547048001994 catalytic residues [active] 547048001995 dimer interface [polypeptide binding]; other site 547048001996 replicative DNA helicase; Provisional; Region: PRK08006 547048001997 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 547048001998 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 547048001999 Walker A motif; other site 547048002000 ATP binding site [chemical binding]; other site 547048002001 Walker B motif; other site 547048002002 DNA binding loops [nucleotide binding] 547048002003 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 547048002004 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 547048002005 NADP binding site [chemical binding]; other site 547048002006 dimer interface [polypeptide binding]; other site 547048002007 phage shock protein G; Reviewed; Region: pspG; PRK09459 547048002008 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 547048002009 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 547048002010 FMN binding site [chemical binding]; other site 547048002011 active site 547048002012 catalytic residues [active] 547048002013 substrate binding site [chemical binding]; other site 547048002014 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 547048002015 metal binding site 2 [ion binding]; metal-binding site 547048002016 putative DNA binding helix; other site 547048002017 metal binding site 1 [ion binding]; metal-binding site 547048002018 dimer interface [polypeptide binding]; other site 547048002019 structural Zn2+ binding site [ion binding]; other site 547048002020 LexA repressor; Validated; Region: PRK00215 547048002021 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 547048002022 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 547048002023 Catalytic site [active] 547048002024 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 547048002025 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 547048002026 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 547048002027 putative acyl-acceptor binding pocket; other site 547048002028 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 547048002029 UbiA prenyltransferase family; Region: UbiA; pfam01040 547048002030 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 547048002031 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 547048002032 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048002033 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048002034 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002035 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 547048002036 Berberine and berberine like; Region: BBE; pfam08031 547048002037 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 547048002038 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 547048002039 Interdomain contacts; other site 547048002040 Cytokine receptor motif; other site 547048002041 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 547048002042 putative fimbrial chaperone protein; Provisional; Region: PRK09918 547048002043 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048002044 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048002045 PapC N-terminal domain; Region: PapC_N; pfam13954 547048002046 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048002047 PapC C-terminal domain; Region: PapC_C; pfam13953 547048002048 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 547048002049 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 547048002050 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048002051 putative metal binding site [ion binding]; other site 547048002052 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 547048002053 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048002054 putative metal binding site [ion binding]; other site 547048002055 Integral membrane protein TerC family; Region: TerC; cl10468 547048002056 tellurite resistance protein terB; Region: terB; cd07176 547048002057 putative metal binding site [ion binding]; other site 547048002058 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 547048002059 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048002060 putative metal binding site [ion binding]; other site 547048002061 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 547048002062 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048002063 putative metal binding site [ion binding]; other site 547048002064 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 547048002065 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048002066 putative metal binding site [ion binding]; other site 547048002067 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 547048002068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048002069 active site 547048002070 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 547048002071 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 547048002072 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 547048002073 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 547048002074 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 547048002075 FAD binding site [chemical binding]; other site 547048002076 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 547048002077 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048002078 FeS/SAM binding site; other site 547048002079 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugX; COG3721 547048002080 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 547048002081 NADH(P)-binding; Region: NAD_binding_10; pfam13460 547048002082 NAD(P) binding site [chemical binding]; other site 547048002083 putative active site [active] 547048002084 Hemin uptake protein hemP; Region: hemP; pfam10636 547048002085 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 547048002086 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048002087 N-terminal plug; other site 547048002088 ligand-binding site [chemical binding]; other site 547048002089 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 547048002090 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 547048002091 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 547048002092 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 547048002093 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 547048002094 putative hemin binding site; other site 547048002095 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 547048002096 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048002097 ABC-ATPase subunit interface; other site 547048002098 dimer interface [polypeptide binding]; other site 547048002099 putative PBP binding regions; other site 547048002100 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 547048002101 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048002102 Walker A/P-loop; other site 547048002103 ATP binding site [chemical binding]; other site 547048002104 Q-loop/lid; other site 547048002105 ABC transporter signature motif; other site 547048002106 Walker B; other site 547048002107 D-loop; other site 547048002108 H-loop/switch region; other site 547048002109 cystathionine beta-lyase; Provisional; Region: PRK09028 547048002110 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 547048002111 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048002112 catalytic residue [active] 547048002113 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 547048002114 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 547048002115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048002116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048002117 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 547048002118 putative effector binding pocket; other site 547048002119 dimerization interface [polypeptide binding]; other site 547048002120 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 547048002121 CPxP motif; other site 547048002122 putative inner membrane protein; Provisional; Region: PRK11099 547048002123 Sulphur transport; Region: Sulf_transp; pfam04143 547048002124 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002125 type III secretion system protein SsaQ; Validated; Region: PRK08035 547048002126 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 547048002127 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 547048002128 type III secretion system ATPase; Validated; Region: PRK06820 547048002129 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 547048002130 Walker A motif/ATP binding site; other site 547048002131 Walker B motif; other site 547048002132 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 547048002133 FHIPEP family; Region: FHIPEP; pfam00771 547048002134 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 547048002135 type III secretion system protein SsaK; Provisional; Region: PRK15354 547048002136 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 547048002137 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 547048002138 Type III secretion needle MxiH like; Region: MxiH; pfam09392 547048002139 Helix-turn-helix domain; Region: HTH_18; pfam12833 547048002140 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048002141 type III secretion system protein, YseE family; Region: type_III_yscE; TIGR02501 547048002142 type III secretion system protein SsaD; Provisional; Region: PRK15367 547048002143 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 547048002144 outer membrane secretin SsaC; Provisional; Region: PRK15346 547048002145 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 547048002146 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547048002147 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547048002148 two component system sensor kinase SsrA; Provisional; Region: PRK15347 547048002149 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048002150 dimer interface [polypeptide binding]; other site 547048002151 phosphorylation site [posttranslational modification] 547048002152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048002153 ATP binding site [chemical binding]; other site 547048002154 Mg2+ binding site [ion binding]; other site 547048002155 G-X-G motif; other site 547048002156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048002157 active site 547048002158 phosphorylation site [posttranslational modification] 547048002159 intermolecular recognition site; other site 547048002160 dimerization interface [polypeptide binding]; other site 547048002161 Hpt domain; Region: Hpt; pfam01627 547048002162 two component system sensor kinase SsrB; Provisional; Region: PRK15369 547048002163 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048002164 active site 547048002165 phosphorylation site [posttranslational modification] 547048002166 intermolecular recognition site; other site 547048002167 dimerization interface [polypeptide binding]; other site 547048002168 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048002169 DNA binding residues [nucleotide binding] 547048002170 dimerization interface [polypeptide binding]; other site 547048002171 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 547048002172 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 547048002173 acetyl-CoA synthetase; Provisional; Region: PRK00174 547048002174 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 547048002175 active site 547048002176 CoA binding site [chemical binding]; other site 547048002177 acyl-activating enzyme (AAE) consensus motif; other site 547048002178 AMP binding site [chemical binding]; other site 547048002179 acetate binding site [chemical binding]; other site 547048002180 Predicted membrane protein [Function unknown]; Region: COG3162 547048002181 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 547048002182 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 547048002183 Na binding site [ion binding]; other site 547048002184 Abhydrolase family; Region: Abhydrolase_7; pfam12715 547048002185 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048002186 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048002187 DNA-binding interface [nucleotide binding]; DNA binding site 547048002188 Integrase core domain; Region: rve; pfam00665 547048002189 transposase/IS protein; Provisional; Region: PRK09183 547048002190 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048002191 Walker A motif; other site 547048002192 ATP binding site [chemical binding]; other site 547048002193 Walker B motif; other site 547048002194 Condensation domain; Region: Condensation; pfam00668 547048002195 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 547048002196 Nonribosomal peptide synthase; Region: NRPS; pfam08415 547048002197 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 547048002198 acyl-activating enzyme (AAE) consensus motif; other site 547048002199 AMP binding site [chemical binding]; other site 547048002200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 547048002201 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 547048002202 Condensation domain; Region: Condensation; pfam00668 547048002203 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 547048002204 Nonribosomal peptide synthase; Region: NRPS; pfam08415 547048002205 potential frameshift: common BLAST hit: gi|218927958|ref|YP_002345833.1| siderophore biosysnthesis protein 547048002206 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 547048002207 acyl-activating enzyme (AAE) consensus motif; other site 547048002208 active site 547048002209 AMP binding site [chemical binding]; other site 547048002210 CoA binding site [chemical binding]; other site 547048002211 potential frameshift: common BLAST hit: gi|108813377|ref|YP_649144.1| siderophore biosysnthesis protein 547048002212 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 547048002213 AMP binding site [chemical binding]; other site 547048002214 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 547048002215 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 547048002216 Condensation domain; Region: Condensation; pfam00668 547048002217 potential frameshift: common BLAST hit: gi|45443171|ref|NP_994710.1| dehydrogenase 547048002218 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 547048002219 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 547048002220 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048002221 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 547048002222 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 547048002223 muropeptide transporter; Validated; Region: ampG; cl17669 547048002224 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 547048002225 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048002226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048002227 Walker A/P-loop; other site 547048002228 ATP binding site [chemical binding]; other site 547048002229 Q-loop/lid; other site 547048002230 ABC transporter signature motif; other site 547048002231 Walker B; other site 547048002232 D-loop; other site 547048002233 H-loop/switch region; other site 547048002234 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 547048002235 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048002236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048002237 Walker A/P-loop; other site 547048002238 ATP binding site [chemical binding]; other site 547048002239 Q-loop/lid; other site 547048002240 ABC transporter signature motif; other site 547048002241 Walker B; other site 547048002242 D-loop; other site 547048002243 H-loop/switch region; other site 547048002244 fructuronate transporter; Provisional; Region: PRK10034 547048002245 gluconate transporter; Region: gntP; TIGR00791 547048002246 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 547048002247 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048002248 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048002249 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 547048002250 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048002251 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048002252 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 547048002253 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048002254 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002255 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002256 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002257 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002258 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002259 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002260 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048002261 RHS Repeat; Region: RHS_repeat; cl11982 547048002262 RHS protein; Region: RHS; pfam03527 547048002263 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048002264 hypothetical protein; Provisional; Region: PRK10039 547048002265 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 547048002266 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 547048002267 transmembrane helices; other site 547048002268 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048002269 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048002270 DNA binding site [nucleotide binding] 547048002271 domain linker motif; other site 547048002272 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 547048002273 putative dimerization interface [polypeptide binding]; other site 547048002274 putative ligand binding site [chemical binding]; other site 547048002275 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 547048002276 putative transposase OrfB; Reviewed; Region: PHA02517 547048002277 HTH-like domain; Region: HTH_21; pfam13276 547048002278 Integrase core domain; Region: rve; pfam00665 547048002279 Integrase core domain; Region: rve_2; pfam13333 547048002280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048002281 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048002282 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048002283 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 547048002284 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 547048002285 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 547048002286 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048002287 N-terminal plug; other site 547048002288 ligand-binding site [chemical binding]; other site 547048002289 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 547048002290 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048002291 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 547048002292 IucA / IucC family; Region: IucA_IucC; pfam04183 547048002293 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 547048002294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 547048002295 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 547048002296 IucA / IucC family; Region: IucA_IucC; pfam04183 547048002297 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 547048002298 IucA / IucC family; Region: IucA_IucC; pfam04183 547048002299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048002300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048002301 putative substrate translocation pore; other site 547048002302 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 547048002303 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 547048002304 putative active site [active] 547048002305 Predicted peptidase [General function prediction only]; Region: COG4099 547048002306 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547048002307 Autoinducer binding domain; Region: Autoind_bind; pfam03472 547048002308 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048002309 DNA binding residues [nucleotide binding] 547048002310 dimerization interface [polypeptide binding]; other site 547048002311 Autoinducer synthetase; Region: Autoind_synth; pfam00765 547048002312 CAAX protease self-immunity; Region: Abi; pfam02517 547048002313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 547048002314 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 547048002315 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 547048002316 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 547048002317 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 547048002318 Protein of unknown function (DUF877); Region: DUF877; pfam05943 547048002319 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 547048002320 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 547048002321 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 547048002322 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 547048002323 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048002324 ligand binding site [chemical binding]; other site 547048002325 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 547048002326 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 547048002327 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048002328 Walker A motif; other site 547048002329 ATP binding site [chemical binding]; other site 547048002330 Walker B motif; other site 547048002331 arginine finger; other site 547048002332 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048002333 Walker A motif; other site 547048002334 ATP binding site [chemical binding]; other site 547048002335 Walker B motif; other site 547048002336 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 547048002337 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 547048002338 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048002339 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048002340 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 547048002341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 547048002342 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048002343 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 547048002344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 547048002345 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 547048002346 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 547048002347 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 547048002348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 547048002349 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048002350 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 547048002351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 547048002352 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 547048002353 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 547048002354 Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]; Region: InsB; COG1662 547048002355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 547048002356 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 547048002357 DNA binding site [nucleotide binding] 547048002358 active site 547048002359 Int/Topo IB signature motif; other site 547048002360 catalytic residues [active] 547048002361 ornithine decarboxylase; Provisional; Region: PRK13578 547048002362 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 547048002363 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 547048002364 homodimer interface [polypeptide binding]; other site 547048002365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048002366 catalytic residue [active] 547048002367 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 547048002368 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048002369 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_9; cd06318 547048002370 putative ligand binding site [chemical binding]; other site 547048002371 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048002372 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048002373 Walker A/P-loop; other site 547048002374 ATP binding site [chemical binding]; other site 547048002375 Q-loop/lid; other site 547048002376 ABC transporter signature motif; other site 547048002377 Walker B; other site 547048002378 D-loop; other site 547048002379 H-loop/switch region; other site 547048002380 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048002381 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048002382 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048002383 TM-ABC transporter signature motif; other site 547048002384 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 547048002385 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048002386 N-terminal plug; other site 547048002387 ligand-binding site [chemical binding]; other site 547048002388 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 547048002389 putative ligand binding residues [chemical binding]; other site 547048002390 murein transglycosylase C; Provisional; Region: mltC; PRK11671 547048002391 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 547048002392 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048002393 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048002394 catalytic residue [active] 547048002395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2924 547048002396 adenine DNA glycosylase; Provisional; Region: PRK10880 547048002397 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547048002398 minor groove reading motif; other site 547048002399 helix-hairpin-helix signature motif; other site 547048002400 substrate binding pocket [chemical binding]; other site 547048002401 active site 547048002402 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 547048002403 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 547048002404 DNA binding and oxoG recognition site [nucleotide binding] 547048002405 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 547048002406 hypothetical protein; Provisional; Region: PRK11702 547048002407 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 547048002408 glutaminase; Provisional; Region: PRK00971 547048002409 Peptidase C80 family; Region: Peptidase_C80; pfam11713 547048002410 Peptidase C80 family; Region: Peptidase_C80; pfam11713 547048002411 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 547048002412 HemN family oxidoreductase; Provisional; Region: PRK05660 547048002413 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048002414 FeS/SAM binding site; other site 547048002415 HemN C-terminal domain; Region: HemN_C; pfam06969 547048002416 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 547048002417 active site 547048002418 dimerization interface [polypeptide binding]; other site 547048002419 hypothetical protein; Validated; Region: PRK05090 547048002420 YGGT family; Region: YGGT; pfam02325 547048002421 Predicted integral membrane protein [Function unknown]; Region: COG0762 547048002422 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 547048002423 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 547048002424 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 547048002425 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547048002426 catalytic residue [active] 547048002427 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 547048002428 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 547048002429 Walker A motif; other site 547048002430 ATP binding site [chemical binding]; other site 547048002431 Walker B motif; other site 547048002432 agmatine deiminase; Provisional; Region: PRK13551 547048002433 agmatine deiminase; Region: agmatine_aguA; TIGR03380 547048002434 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 547048002435 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 547048002436 putative active site; other site 547048002437 catalytic triad [active] 547048002438 putative dimer interface [polypeptide binding]; other site 547048002439 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 547048002440 hypothetical protein; Validated; Region: PRK00228 547048002441 glutathione synthetase; Provisional; Region: PRK05246 547048002442 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 547048002443 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 547048002444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 547048002445 RNA methyltransferase, RsmE family; Region: TIGR00046 547048002446 DNA-specific endonuclease I; Provisional; Region: PRK15137 547048002447 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 547048002448 hypothetical protein; Provisional; Region: PRK04860 547048002449 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 547048002450 S-adenosylmethionine synthetase; Validated; Region: PRK05250 547048002451 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 547048002452 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 547048002453 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 547048002454 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 547048002455 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 547048002456 dimer interface [polypeptide binding]; other site 547048002457 active site 547048002458 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547048002459 catalytic residues [active] 547048002460 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 547048002461 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 547048002462 [2Fe-2S] cluster binding site [ion binding]; other site 547048002463 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002464 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 547048002465 transketolase; Reviewed; Region: PRK12753 547048002466 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 547048002467 TPP-binding site [chemical binding]; other site 547048002468 dimer interface [polypeptide binding]; other site 547048002469 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 547048002470 PYR/PP interface [polypeptide binding]; other site 547048002471 dimer interface [polypeptide binding]; other site 547048002472 TPP binding site [chemical binding]; other site 547048002473 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 547048002474 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048002475 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 547048002476 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 547048002477 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 547048002478 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 547048002479 Phosphoglycerate kinase; Region: PGK; pfam00162 547048002480 substrate binding site [chemical binding]; other site 547048002481 hinge regions; other site 547048002482 ADP binding site [chemical binding]; other site 547048002483 catalytic site [active] 547048002484 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 547048002485 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 547048002486 active site 547048002487 intersubunit interface [polypeptide binding]; other site 547048002488 zinc binding site [ion binding]; other site 547048002489 Na+ binding site [ion binding]; other site 547048002490 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002491 mechanosensitive channel MscS; Provisional; Region: PRK10334 547048002492 Conserved TM helix; Region: TM_helix; pfam05552 547048002493 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547048002494 arginine exporter protein; Provisional; Region: PRK09304 547048002495 Uncharacterized conserved protein [Function unknown]; Region: COG2968 547048002496 oxidative stress defense protein; Provisional; Region: PRK11087 547048002497 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 547048002498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048002499 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 547048002500 putative dimerization interface [polypeptide binding]; other site 547048002501 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 547048002502 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547048002503 active site 547048002504 dimer interface [polypeptide binding]; other site 547048002505 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 547048002506 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 547048002507 ligand binding site [chemical binding]; other site 547048002508 NAD binding site [chemical binding]; other site 547048002509 tetramer interface [polypeptide binding]; other site 547048002510 catalytic site [active] 547048002511 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 547048002512 L-serine binding site [chemical binding]; other site 547048002513 ACT domain interface; other site 547048002514 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002515 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 547048002516 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 547048002517 Z-ring-associated protein; Provisional; Region: PRK10972 547048002518 hypothetical protein; Reviewed; Region: PRK01736 547048002519 proline aminopeptidase P II; Provisional; Region: PRK10879 547048002520 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 547048002521 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 547048002522 active site 547048002523 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 547048002524 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 547048002525 oxidoreductase; Provisional; Region: PRK08013 547048002526 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 547048002527 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 547048002528 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 547048002529 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 547048002530 lipoyl attachment site [posttranslational modification]; other site 547048002531 glycine dehydrogenase; Provisional; Region: PRK05367 547048002532 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 547048002533 tetramer interface [polypeptide binding]; other site 547048002534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048002535 catalytic residue [active] 547048002536 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 547048002537 tetramer interface [polypeptide binding]; other site 547048002538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048002539 catalytic residue [active] 547048002540 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002541 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 547048002542 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 547048002543 YadA-like C-terminal region; Region: YadA; pfam03895 547048002544 hemolysin; Provisional; Region: PRK15087 547048002545 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 547048002546 Predicted small integral membrane protein [Function unknown]; Region: COG5472 547048002547 putative global regulator; Reviewed; Region: PRK09559 547048002548 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 547048002549 hypothetical protein; Provisional; Region: PRK10878 547048002550 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 547048002551 DNA-binding response regulator CreB; Provisional; Region: PRK11083 547048002552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048002553 active site 547048002554 phosphorylation site [posttranslational modification] 547048002555 intermolecular recognition site; other site 547048002556 dimerization interface [polypeptide binding]; other site 547048002557 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048002558 DNA binding site [nucleotide binding] 547048002559 sensory histidine kinase CreC; Provisional; Region: PRK11100 547048002560 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048002561 dimer interface [polypeptide binding]; other site 547048002562 phosphorylation site [posttranslational modification] 547048002563 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048002564 ATP binding site [chemical binding]; other site 547048002565 Mg2+ binding site [ion binding]; other site 547048002566 G-X-G motif; other site 547048002567 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 547048002568 flavodoxin FldB; Provisional; Region: PRK12359 547048002569 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 547048002570 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 547048002571 active site 547048002572 Int/Topo IB signature motif; other site 547048002573 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 547048002574 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 547048002575 dimerization domain [polypeptide binding]; other site 547048002576 dimer interface [polypeptide binding]; other site 547048002577 catalytic residues [active] 547048002578 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 547048002579 DHH family; Region: DHH; pfam01368 547048002580 DHHA1 domain; Region: DHHA1; pfam02272 547048002581 peptide chain release factor 2; Validated; Region: prfB; PRK00578 547048002582 This domain is found in peptide chain release factors; Region: PCRF; smart00937 547048002583 RF-1 domain; Region: RF-1; pfam00472 547048002584 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 547048002585 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 547048002586 dimer interface [polypeptide binding]; other site 547048002587 putative anticodon binding site; other site 547048002588 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 547048002589 motif 1; other site 547048002590 active site 547048002591 motif 2; other site 547048002592 motif 3; other site 547048002593 integrase; Provisional; Region: PRK09692 547048002594 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 547048002595 active site 547048002596 Int/Topo IB signature motif; other site 547048002597 Ash protein family; Region: Phage_ASH; pfam10554 547048002598 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 547048002599 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048002600 non-specific DNA binding site [nucleotide binding]; other site 547048002601 salt bridge; other site 547048002602 sequence-specific DNA binding site [nucleotide binding]; other site 547048002603 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 547048002604 peptide binding site [polypeptide binding]; other site 547048002605 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 547048002606 toxin interface [polypeptide binding]; other site 547048002607 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 547048002608 Zn binding site [ion binding]; other site 547048002609 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048002610 non-specific DNA binding site [nucleotide binding]; other site 547048002611 salt bridge; other site 547048002612 sequence-specific DNA binding site [nucleotide binding]; other site 547048002613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 547048002614 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 547048002615 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 547048002616 D5 N terminal like; Region: D5_N; smart00885 547048002617 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 547048002618 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 547048002619 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 547048002620 Fic family protein [Function unknown]; Region: COG3177 547048002621 Fic/DOC family; Region: Fic; pfam02661 547048002622 PAAR motif; Region: PAAR_motif; pfam05488 547048002623 Pyocin large subunit [General function prediction only]; Region: COG5529 547048002624 S-type Pyocin; Region: Pyocin_S; pfam06958 547048002625 Bacterial self-protective colicin-like immunity; Region: Colicin_immun; pfam09204 547048002626 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 547048002627 PAAR motif; Region: PAAR_motif; pfam05488 547048002628 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 547048002629 Predicted transcriptional regulators [Transcription]; Region: COG1695 547048002630 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 547048002631 hypothetical protein; Provisional; Region: PRK11479 547048002632 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 547048002633 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048002634 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 547048002635 putative ligand binding site [chemical binding]; other site 547048002636 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048002637 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048002638 TM-ABC transporter signature motif; other site 547048002639 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048002640 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048002641 Walker A/P-loop; other site 547048002642 ATP binding site [chemical binding]; other site 547048002643 Q-loop/lid; other site 547048002644 ABC transporter signature motif; other site 547048002645 Walker B; other site 547048002646 D-loop; other site 547048002647 H-loop/switch region; other site 547048002648 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048002649 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 547048002650 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048002651 Walker A/P-loop; other site 547048002652 ATP binding site [chemical binding]; other site 547048002653 Q-loop/lid; other site 547048002654 ABC transporter signature motif; other site 547048002655 Walker B; other site 547048002656 D-loop; other site 547048002657 H-loop/switch region; other site 547048002658 TOBE domain; Region: TOBE_2; pfam08402 547048002659 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 547048002660 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048002661 DAK2 domain; Region: Dak2; cl03685 547048002662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048002663 dimer interface [polypeptide binding]; other site 547048002664 conserved gate region; other site 547048002665 ABC-ATPase subunit interface; other site 547048002666 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048002667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048002668 dimer interface [polypeptide binding]; other site 547048002669 conserved gate region; other site 547048002670 putative PBP binding loops; other site 547048002671 ABC-ATPase subunit interface; other site 547048002672 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 547048002673 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 547048002674 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 547048002675 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 547048002676 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 547048002677 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 547048002678 active site turn [active] 547048002679 phosphorylation site [posttranslational modification] 547048002680 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 547048002681 trimer interface; other site 547048002682 sugar binding site [chemical binding]; other site 547048002683 lac repressor; Reviewed; Region: lacI; PRK09526 547048002684 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048002685 DNA binding site [nucleotide binding] 547048002686 domain linker motif; other site 547048002687 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 547048002688 ligand binding site [chemical binding]; other site 547048002689 dimerization interface (open form) [polypeptide binding]; other site 547048002690 dimerization interface (closed form) [polypeptide binding]; other site 547048002691 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002692 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 547048002693 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 547048002694 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 547048002695 putative active site [active] 547048002696 putative catalytic site [active] 547048002697 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048002698 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048002699 DNA binding site [nucleotide binding] 547048002700 domain linker motif; other site 547048002701 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 547048002702 dimerization interface [polypeptide binding]; other site 547048002703 ligand binding site [chemical binding]; other site 547048002704 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 547048002705 DJ-1 family protein; Region: not_thiJ; TIGR01383 547048002706 conserved cys residue [active] 547048002707 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 547048002708 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 547048002709 intersubunit interface [polypeptide binding]; other site 547048002710 active site 547048002711 zinc binding site [ion binding]; other site 547048002712 Na+ binding site [ion binding]; other site 547048002713 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 547048002714 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 547048002715 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 547048002716 Sulfatase; Region: Sulfatase; pfam00884 547048002717 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 547048002718 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048002719 FeS/SAM binding site; other site 547048002720 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 547048002721 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 547048002722 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 547048002723 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 547048002724 active site 547048002725 dimer interface [polypeptide binding]; other site 547048002726 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 547048002727 active pocket/dimerization site; other site 547048002728 active site 547048002729 phosphorylation site [posttranslational modification] 547048002730 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 547048002731 active site 547048002732 phosphorylation site [posttranslational modification] 547048002733 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 547048002734 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 547048002735 dimer interface [polypeptide binding]; other site 547048002736 active site 547048002737 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 547048002738 putative active site [active] 547048002739 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 547048002740 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 547048002741 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 547048002742 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 547048002743 Sulfatase; Region: Sulfatase; cl17466 547048002744 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 547048002745 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048002746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048002747 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048002748 DNA-binding interface [nucleotide binding]; DNA binding site 547048002749 Integrase core domain; Region: rve; pfam00665 547048002750 transposase/IS protein; Provisional; Region: PRK09183 547048002751 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048002752 Walker A motif; other site 547048002753 ATP binding site [chemical binding]; other site 547048002754 Walker B motif; other site 547048002755 Lyase, N terminal; Region: Lyase_N; pfam09092 547048002756 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 547048002757 substrate binding site [chemical binding]; other site 547048002758 catalytic residues [active] 547048002759 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048002760 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 547048002761 active site clefts [active] 547048002762 zinc binding site [ion binding]; other site 547048002763 dimer interface [polypeptide binding]; other site 547048002764 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 547048002765 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 547048002766 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 547048002767 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547048002768 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547048002769 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 547048002770 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547048002771 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 547048002772 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 547048002773 Walker A motif; other site 547048002774 ATP binding site [chemical binding]; other site 547048002775 Walker B motif; other site 547048002776 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 547048002777 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547048002778 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547048002779 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 547048002780 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 547048002781 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 547048002782 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 547048002783 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 547048002784 type II secretion system protein I; Region: gspI; TIGR01707 547048002785 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 547048002786 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 547048002787 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 547048002788 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 547048002789 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 547048002790 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 547048002791 GspL periplasmic domain; Region: GspL_C; pfam12693 547048002792 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 547048002793 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 547048002794 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 547048002795 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 547048002796 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 547048002797 DNA binding site [nucleotide binding] 547048002798 potential frameshift: common BLAST hit: gi|294503013|ref|YP_003567075.1| methyl-accepting chemotaxis protein 547048002799 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 547048002800 dimer interface [polypeptide binding]; other site 547048002801 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048002802 dimerization interface [polypeptide binding]; other site 547048002803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 547048002804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048002805 dimer interface [polypeptide binding]; other site 547048002806 putative CheW interface [polypeptide binding]; other site 547048002807 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 547048002808 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 547048002809 catalytic residues [active] 547048002810 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 547048002811 transcriptional activator TtdR; Provisional; Region: PRK09801 547048002812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048002813 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 547048002814 putative effector binding pocket; other site 547048002815 dimerization interface [polypeptide binding]; other site 547048002816 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048002817 putative substrate translocation pore; other site 547048002818 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048002819 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 547048002820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048002821 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048002822 dimerization interface [polypeptide binding]; other site 547048002823 diaminopimelate decarboxylase; Provisional; Region: PRK11165 547048002824 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 547048002825 active site 547048002826 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547048002827 substrate binding site [chemical binding]; other site 547048002828 catalytic residues [active] 547048002829 dimer interface [polypeptide binding]; other site 547048002830 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 547048002831 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048002832 DNA binding site [nucleotide binding] 547048002833 domain linker motif; other site 547048002834 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 547048002835 dimerization interface (closed form) [polypeptide binding]; other site 547048002836 ligand binding site [chemical binding]; other site 547048002837 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 547048002838 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 547048002839 molybdopterin cofactor binding site [chemical binding]; other site 547048002840 substrate binding site [chemical binding]; other site 547048002841 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 547048002842 molybdopterin cofactor binding site; other site 547048002843 lysophospholipid transporter LplT; Provisional; Region: PRK11195 547048002844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048002845 putative substrate translocation pore; other site 547048002846 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 547048002847 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048002848 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048002849 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048002850 active site 547048002851 catalytic tetrad [active] 547048002852 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 547048002853 putative DNA-binding cleft [nucleotide binding]; other site 547048002854 putative DNA clevage site; other site 547048002855 molecular lever; other site 547048002856 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 547048002857 putative active site [active] 547048002858 Ap4A binding site [chemical binding]; other site 547048002859 nudix motif; other site 547048002860 putative metal binding site [ion binding]; other site 547048002861 potential frameshift: common BLAST hit: gi|218927965|ref|YP_002345840.1| fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF 547048002862 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 547048002863 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 547048002864 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 547048002865 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 547048002866 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 547048002867 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 547048002868 thymidylate synthase; Reviewed; Region: thyA; PRK01827 547048002869 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 547048002870 dimerization interface [polypeptide binding]; other site 547048002871 active site 547048002872 hypothetical protein; Provisional; Region: PRK10506 547048002873 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 547048002874 hypothetical protein; Provisional; Region: PRK10557 547048002875 Protein of unknown function (DUF2509); Region: DUF2509; pfam10713 547048002876 hypothetical protein; Provisional; Region: PRK10332 547048002877 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 547048002878 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 547048002879 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 547048002880 protease3; Provisional; Region: PRK15101 547048002881 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 547048002882 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 547048002883 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 547048002884 N-acetylglutamate synthase; Validated; Region: PRK05279 547048002885 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 547048002886 putative feedback inhibition sensing region; other site 547048002887 putative nucleotide binding site [chemical binding]; other site 547048002888 putative substrate binding site [chemical binding]; other site 547048002889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048002890 Coenzyme A binding pocket [chemical binding]; other site 547048002891 AMIN domain; Region: AMIN; pfam11741 547048002892 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 547048002893 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 547048002894 active site 547048002895 metal binding site [ion binding]; metal-binding site 547048002896 murein transglycosylase A; Provisional; Region: mltA; PRK11162 547048002897 MltA specific insert domain; Region: MltA; smart00925 547048002898 3D domain; Region: 3D; pfam06725 547048002899 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 547048002900 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 547048002901 putative ATP binding site [chemical binding]; other site 547048002902 putative substrate interface [chemical binding]; other site 547048002903 cysteine desulfurase, sulfur acceptor subunit CsdE; Region: FeS_syn_CsdE; TIGR03391 547048002904 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 547048002905 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 547048002906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048002907 catalytic residue [active] 547048002908 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 547048002909 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 547048002910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048002911 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 547048002912 dimerization interface [polypeptide binding]; other site 547048002913 substrate binding pocket [chemical binding]; other site 547048002914 hypothetical protein; Provisional; Region: PRK10873 547048002915 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 547048002916 FtsJ-like methyltransferase; Region: FtsJ; cl17430 547048002917 flap endonuclease-like protein; Provisional; Region: PRK09482 547048002918 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 547048002919 active site 547048002920 metal binding site 1 [ion binding]; metal-binding site 547048002921 putative 5' ssDNA interaction site; other site 547048002922 metal binding site 3; metal-binding site 547048002923 metal binding site 2 [ion binding]; metal-binding site 547048002924 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 547048002925 putative DNA binding site [nucleotide binding]; other site 547048002926 putative metal binding site [ion binding]; other site 547048002927 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 547048002928 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 547048002929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 547048002930 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 547048002931 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 547048002932 SecY interacting protein Syd; Provisional; Region: PRK04968 547048002933 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048002934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 547048002935 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 547048002936 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 547048002937 probable active site [active] 547048002938 flavodoxin; Provisional; Region: PRK08105 547048002939 hypothetical protein; Provisional; Region: PRK13677 547048002940 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048002941 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 547048002942 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 547048002943 trimer interface [polypeptide binding]; other site 547048002944 active site 547048002945 substrate binding site [chemical binding]; other site 547048002946 CoA binding site [chemical binding]; other site 547048002947 PII uridylyl-transferase; Provisional; Region: PRK05007 547048002948 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 547048002949 metal binding triad; other site 547048002950 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 547048002951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 547048002952 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 547048002953 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 547048002954 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 547048002955 active site 547048002956 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 547048002957 rRNA interaction site [nucleotide binding]; other site 547048002958 S8 interaction site; other site 547048002959 putative laminin-1 binding site; other site 547048002960 elongation factor Ts; Provisional; Region: tsf; PRK09377 547048002961 UBA/TS-N domain; Region: UBA; pfam00627 547048002962 Elongation factor TS; Region: EF_TS; pfam00889 547048002963 Elongation factor TS; Region: EF_TS; pfam00889 547048002964 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 547048002965 putative nucleotide binding site [chemical binding]; other site 547048002966 uridine monophosphate binding site [chemical binding]; other site 547048002967 homohexameric interface [polypeptide binding]; other site 547048002968 ribosome recycling factor; Reviewed; Region: frr; PRK00083 547048002969 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 547048002970 hinge region; other site 547048002971 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 547048002972 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 547048002973 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 547048002974 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 547048002975 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 547048002976 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 547048002977 catalytic residue [active] 547048002978 putative FPP diphosphate binding site; other site 547048002979 putative FPP binding hydrophobic cleft; other site 547048002980 dimer interface [polypeptide binding]; other site 547048002981 putative IPP diphosphate binding site; other site 547048002982 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 547048002983 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 547048002984 zinc metallopeptidase RseP; Provisional; Region: PRK10779 547048002985 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 547048002986 active site 547048002987 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 547048002988 protein binding site [polypeptide binding]; other site 547048002989 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 547048002990 protein binding site [polypeptide binding]; other site 547048002991 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 547048002992 putative substrate binding region [chemical binding]; other site 547048002993 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 547048002994 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048002995 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048002996 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048002997 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048002998 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 547048002999 Surface antigen; Region: Bac_surface_Ag; pfam01103 547048003000 periplasmic chaperone; Provisional; Region: PRK10780 547048003001 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 547048003002 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 547048003003 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 547048003004 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 547048003005 trimer interface [polypeptide binding]; other site 547048003006 active site 547048003007 UDP-GlcNAc binding site [chemical binding]; other site 547048003008 lipid binding site [chemical binding]; lipid-binding site 547048003009 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 547048003010 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 547048003011 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 547048003012 active site 547048003013 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 547048003014 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 547048003015 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 547048003016 RNA/DNA hybrid binding site [nucleotide binding]; other site 547048003017 active site 547048003018 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 547048003019 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 547048003020 putative active site [active] 547048003021 putative PHP Thumb interface [polypeptide binding]; other site 547048003022 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 547048003023 generic binding surface II; other site 547048003024 generic binding surface I; other site 547048003025 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 547048003026 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 547048003027 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 547048003028 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 547048003029 putative metal binding site [ion binding]; other site 547048003030 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 547048003031 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 547048003032 Ligand Binding Site [chemical binding]; other site 547048003033 TilS substrate binding domain; Region: TilS; pfam09179 547048003034 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 547048003035 Cytochrome c553 [Energy production and conversion]; Region: COG2863 547048003036 Rho-binding antiterminator; Provisional; Region: PRK11625 547048003037 hypothetical protein; Provisional; Region: PRK04964 547048003038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 547048003039 hypothetical protein; Provisional; Region: PRK09256 547048003040 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 547048003041 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 547048003042 NlpE N-terminal domain; Region: NlpE; pfam04170 547048003043 prolyl-tRNA synthetase; Provisional; Region: PRK09194 547048003044 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 547048003045 dimer interface [polypeptide binding]; other site 547048003046 motif 1; other site 547048003047 active site 547048003048 motif 2; other site 547048003049 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 547048003050 putative deacylase active site [active] 547048003051 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 547048003052 active site 547048003053 motif 3; other site 547048003054 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 547048003055 anticodon binding site; other site 547048003056 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 547048003057 homodimer interaction site [polypeptide binding]; other site 547048003058 cofactor binding site; other site 547048003059 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 547048003060 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 547048003061 lipoprotein, YaeC family; Region: TIGR00363 547048003062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003063 dimer interface [polypeptide binding]; other site 547048003064 conserved gate region; other site 547048003065 ABC-ATPase subunit interface; other site 547048003066 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 547048003067 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 547048003068 Walker A/P-loop; other site 547048003069 ATP binding site [chemical binding]; other site 547048003070 Q-loop/lid; other site 547048003071 ABC transporter signature motif; other site 547048003072 Walker B; other site 547048003073 D-loop; other site 547048003074 H-loop/switch region; other site 547048003075 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 547048003076 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 547048003077 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048003078 active site 547048003079 motif I; other site 547048003080 motif II; other site 547048003081 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048003082 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048003083 active site 547048003084 catalytic tetrad [active] 547048003085 hypothetical protein; Provisional; Region: PRK05421 547048003086 putative catalytic site [active] 547048003087 putative phosphate binding site [ion binding]; other site 547048003088 putative metal binding site [ion binding]; other site 547048003089 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 547048003090 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048003091 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048003092 catalytic residue [active] 547048003093 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048003094 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048003095 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 547048003096 Methyltransferase domain; Region: Methyltransf_11; pfam08241 547048003097 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 547048003098 RNA/DNA hybrid binding site [nucleotide binding]; other site 547048003099 active site 547048003100 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 547048003101 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 547048003102 active site 547048003103 catalytic site [active] 547048003104 substrate binding site [chemical binding]; other site 547048003105 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 547048003106 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 547048003107 Na binding site [ion binding]; other site 547048003108 putative substrate binding site [chemical binding]; other site 547048003109 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 547048003110 transposase/IS protein; Provisional; Region: PRK09183 547048003111 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048003112 Walker A motif; other site 547048003113 ATP binding site [chemical binding]; other site 547048003114 Walker B motif; other site 547048003115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048003116 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048003117 DNA-binding interface [nucleotide binding]; DNA binding site 547048003118 Integrase core domain; Region: rve; pfam00665 547048003119 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 547048003120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3657 547048003121 Predicted transcriptional regulator [Transcription]; Region: COG3636 547048003122 AAA domain; Region: AAA_25; pfam13481 547048003123 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 547048003124 Walker A motif; other site 547048003125 ATP binding site [chemical binding]; other site 547048003126 Walker B motif; other site 547048003127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 547048003128 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 547048003129 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 547048003130 active site 547048003131 metal binding site [ion binding]; metal-binding site 547048003132 interdomain interaction site; other site 547048003133 Ash protein family; Region: Phage_ASH; pfam10554 547048003134 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 547048003135 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 547048003136 Integrase; Region: Integrase_1; pfam12835 547048003137 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 547048003138 integrase; Provisional; Region: PRK09692 547048003139 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 547048003140 active site 547048003141 Int/Topo IB signature motif; other site 547048003142 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003143 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 547048003144 SmpB-tmRNA interface; other site 547048003145 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 547048003146 putative coenzyme Q binding site [chemical binding]; other site 547048003147 hypothetical protein; Validated; Region: PRK01777 547048003148 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 547048003149 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 547048003150 recombination and repair protein; Provisional; Region: PRK10869 547048003151 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 547048003152 Walker A/P-loop; other site 547048003153 ATP binding site [chemical binding]; other site 547048003154 Q-loop/lid; other site 547048003155 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 547048003156 Q-loop/lid; other site 547048003157 ABC transporter signature motif; other site 547048003158 Walker B; other site 547048003159 D-loop; other site 547048003160 H-loop/switch region; other site 547048003161 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 547048003162 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 547048003163 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 547048003164 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 547048003165 dimer interface [polypeptide binding]; other site 547048003166 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 547048003167 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 547048003168 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 547048003169 dimer interface [polypeptide binding]; other site 547048003170 active site 547048003171 citrylCoA binding site [chemical binding]; other site 547048003172 NADH binding [chemical binding]; other site 547048003173 cationic pore residues; other site 547048003174 oxalacetate/citrate binding site [chemical binding]; other site 547048003175 coenzyme A binding site [chemical binding]; other site 547048003176 catalytic triad [active] 547048003177 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 547048003178 SdhC subunit interface [polypeptide binding]; other site 547048003179 proximal heme binding site [chemical binding]; other site 547048003180 cardiolipin binding site; other site 547048003181 Iron-sulfur protein interface; other site 547048003182 proximal quinone binding site [chemical binding]; other site 547048003183 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 547048003184 L-aspartate oxidase; Provisional; Region: PRK06175 547048003185 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 547048003186 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 547048003187 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 547048003188 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 547048003189 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 547048003190 TPP-binding site [chemical binding]; other site 547048003191 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 547048003192 dimer interface [polypeptide binding]; other site 547048003193 PYR/PP interface [polypeptide binding]; other site 547048003194 TPP binding site [chemical binding]; other site 547048003195 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 547048003196 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 547048003197 E3 interaction surface; other site 547048003198 lipoyl attachment site [posttranslational modification]; other site 547048003199 e3 binding domain; Region: E3_binding; pfam02817 547048003200 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 547048003201 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 547048003202 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 547048003203 CoA-ligase; Region: Ligase_CoA; pfam00549 547048003204 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 547048003205 CoA binding domain; Region: CoA_binding; smart00881 547048003206 CoA-ligase; Region: Ligase_CoA; pfam00549 547048003207 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 547048003208 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 547048003209 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 547048003210 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 547048003211 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 547048003212 hypothetical protein; Provisional; Region: PRK10588 547048003213 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 547048003214 active site 547048003215 colicin uptake protein TolQ; Provisional; Region: PRK10801 547048003216 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 547048003217 colicin uptake protein TolR; Provisional; Region: PRK11024 547048003218 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 547048003219 TolA C-terminal; Region: TolA; pfam06519 547048003220 translocation protein TolB; Provisional; Region: tolB; PRK03629 547048003221 TolB amino-terminal domain; Region: TolB_N; pfam04052 547048003222 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 547048003223 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 547048003224 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 547048003225 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 547048003226 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048003227 ligand binding site [chemical binding]; other site 547048003228 tol-pal system protein YbgF; Provisional; Region: PRK10803 547048003229 Tetratricopeptide repeat; Region: TPR_6; pfam13174 547048003230 quinolinate synthetase; Provisional; Region: PRK09375 547048003231 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 547048003232 zinc transporter ZitB; Provisional; Region: PRK03557 547048003233 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 547048003234 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 547048003235 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 547048003236 catalytic core [active] 547048003237 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 547048003238 psiF repeat; Region: PsiF_repeat; pfam07769 547048003239 psiF repeat; Region: PsiF_repeat; pfam07769 547048003240 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 547048003241 active site 547048003242 catalytic residues [active] 547048003243 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 547048003244 galactokinase; Provisional; Region: PRK05101 547048003245 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 547048003246 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 547048003247 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 547048003248 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 547048003249 dimer interface [polypeptide binding]; other site 547048003250 active site 547048003251 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 547048003252 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 547048003253 NAD binding site [chemical binding]; other site 547048003254 homodimer interface [polypeptide binding]; other site 547048003255 active site 547048003256 substrate binding site [chemical binding]; other site 547048003257 CAAX protease self-immunity; Region: Abi; pfam02517 547048003258 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 547048003259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048003260 Walker A/P-loop; other site 547048003261 ATP binding site [chemical binding]; other site 547048003262 ABC transporter signature motif; other site 547048003263 Walker B; other site 547048003264 D-loop; other site 547048003265 H-loop/switch region; other site 547048003266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048003267 Walker A/P-loop; other site 547048003268 ATP binding site [chemical binding]; other site 547048003269 Q-loop/lid; other site 547048003270 ABC transporter signature motif; other site 547048003271 Walker B; other site 547048003272 D-loop; other site 547048003273 H-loop/switch region; other site 547048003274 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 547048003275 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 547048003276 molybdenum-pterin binding domain; Region: Mop; TIGR00638 547048003277 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 547048003278 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 547048003279 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 547048003280 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048003281 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 547048003282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003283 dimer interface [polypeptide binding]; other site 547048003284 conserved gate region; other site 547048003285 putative PBP binding loops; other site 547048003286 ABC-ATPase subunit interface; other site 547048003287 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 547048003288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048003289 Walker A/P-loop; other site 547048003290 ATP binding site [chemical binding]; other site 547048003291 Q-loop/lid; other site 547048003292 ABC transporter signature motif; other site 547048003293 Walker B; other site 547048003294 D-loop; other site 547048003295 H-loop/switch region; other site 547048003296 molybdenum-pterin binding domain; Region: Mop; TIGR00638 547048003297 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 547048003298 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048003299 active site 547048003300 motif I; other site 547048003301 motif II; other site 547048003302 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048003303 6-phosphogluconolactonase; Provisional; Region: PRK11028 547048003304 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 547048003305 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547048003306 inhibitor-cofactor binding pocket; inhibition site 547048003307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003308 catalytic residue [active] 547048003309 biotin synthase; Provisional; Region: PRK15108 547048003310 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048003311 FeS/SAM binding site; other site 547048003312 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 547048003313 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 547048003314 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 547048003315 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048003316 catalytic residue [active] 547048003317 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 547048003318 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048003319 S-adenosylmethionine binding site [chemical binding]; other site 547048003320 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 547048003321 AAA domain; Region: AAA_26; pfam13500 547048003322 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 547048003323 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 547048003324 Walker A/P-loop; other site 547048003325 ATP binding site [chemical binding]; other site 547048003326 Q-loop/lid; other site 547048003327 ABC transporter signature motif; other site 547048003328 Walker B; other site 547048003329 D-loop; other site 547048003330 H-loop/switch region; other site 547048003331 excinuclease ABC subunit B; Provisional; Region: PRK05298 547048003332 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 547048003333 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048003334 ATP-binding site [chemical binding]; other site 547048003335 ATP binding site [chemical binding]; other site 547048003336 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048003337 nucleotide binding region [chemical binding]; other site 547048003338 ATP-binding site [chemical binding]; other site 547048003339 Ultra-violet resistance protein B; Region: UvrB; pfam12344 547048003340 UvrB/uvrC motif; Region: UVR; pfam02151 547048003341 Uncharacterized conserved protein [Function unknown]; Region: COG4628 547048003342 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 547048003343 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 547048003344 phosphate binding site [ion binding]; other site 547048003345 putative substrate binding pocket [chemical binding]; other site 547048003346 dimer interface [polypeptide binding]; other site 547048003347 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 547048003348 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048003349 FeS/SAM binding site; other site 547048003350 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 547048003351 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 547048003352 trimer interface [polypeptide binding]; other site 547048003353 dimer interface [polypeptide binding]; other site 547048003354 putative active site [active] 547048003355 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 547048003356 MoaE interaction surface [polypeptide binding]; other site 547048003357 MoeB interaction surface [polypeptide binding]; other site 547048003358 thiocarboxylated glycine; other site 547048003359 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 547048003360 MoaE homodimer interface [polypeptide binding]; other site 547048003361 MoaD interaction [polypeptide binding]; other site 547048003362 active site residues [active] 547048003363 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 547048003364 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 547048003365 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003366 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 547048003367 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 547048003368 NAD(P) binding site [chemical binding]; other site 547048003369 catalytic residues [active] 547048003370 transcriptional regulator BetI; Validated; Region: PRK00767 547048003371 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048003372 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 547048003373 choline transport protein BetT; Provisional; Region: PRK09928 547048003374 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 547048003375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048003376 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 547048003377 putative dimerization interface [polypeptide binding]; other site 547048003378 putative substrate binding pocket [chemical binding]; other site 547048003379 EamA-like transporter family; Region: EamA; pfam00892 547048003380 xanthosine phosphorylase; Region: XAPA; TIGR01699 547048003381 zinc resistance protein; Provisional; Region: zraP; PRK11546 547048003382 dimer interface [polypeptide binding]; other site 547048003383 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 547048003384 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048003385 putative active site [active] 547048003386 heme pocket [chemical binding]; other site 547048003387 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048003388 dimer interface [polypeptide binding]; other site 547048003389 phosphorylation site [posttranslational modification] 547048003390 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048003391 ATP binding site [chemical binding]; other site 547048003392 Mg2+ binding site [ion binding]; other site 547048003393 G-X-G motif; other site 547048003394 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 547048003395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048003396 active site 547048003397 phosphorylation site [posttranslational modification] 547048003398 intermolecular recognition site; other site 547048003399 dimerization interface [polypeptide binding]; other site 547048003400 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048003401 Walker A motif; other site 547048003402 ATP binding site [chemical binding]; other site 547048003403 Walker B motif; other site 547048003404 arginine finger; other site 547048003405 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547048003406 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 547048003407 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 547048003408 FMN binding site [chemical binding]; other site 547048003409 active site 547048003410 substrate binding site [chemical binding]; other site 547048003411 catalytic residue [active] 547048003412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048003413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048003414 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 547048003415 putative effector binding pocket; other site 547048003416 putative dimerization interface [polypeptide binding]; other site 547048003417 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 547048003418 conserved hypothetical protein; Region: TIGR02118 547048003419 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 547048003420 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 547048003421 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 547048003422 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 547048003423 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 547048003424 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 547048003425 Walker A/P-loop; other site 547048003426 ATP binding site [chemical binding]; other site 547048003427 Q-loop/lid; other site 547048003428 ABC transporter signature motif; other site 547048003429 Walker B; other site 547048003430 D-loop; other site 547048003431 H-loop/switch region; other site 547048003432 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 547048003433 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 547048003434 Walker A/P-loop; other site 547048003435 ATP binding site [chemical binding]; other site 547048003436 Q-loop/lid; other site 547048003437 ABC transporter signature motif; other site 547048003438 Walker B; other site 547048003439 D-loop; other site 547048003440 H-loop/switch region; other site 547048003441 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 547048003442 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048003443 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048003444 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 547048003445 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048003446 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 547048003447 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 547048003448 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547048003449 ATP binding site [chemical binding]; other site 547048003450 Mg++ binding site [ion binding]; other site 547048003451 motif III; other site 547048003452 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048003453 nucleotide binding region [chemical binding]; other site 547048003454 ATP-binding site [chemical binding]; other site 547048003455 DDE superfamily endonuclease; Region: DDE_3; pfam13358 547048003456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048003457 MULE transposase domain; Region: MULE; pfam10551 547048003458 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048003459 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 547048003460 substrate binding site [chemical binding]; other site 547048003461 dimer interface [polypeptide binding]; other site 547048003462 ATP binding site [chemical binding]; other site 547048003463 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 547048003464 lipid kinase; Reviewed; Region: PRK13054 547048003465 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 547048003466 putative protease; Provisional; Region: PRK15452 547048003467 Peptidase family U32; Region: Peptidase_U32; pfam01136 547048003468 Uncharacterized conserved protein [Function unknown]; Region: COG3422 547048003469 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 547048003470 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 547048003471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048003472 active site 547048003473 phosphorylation site [posttranslational modification] 547048003474 intermolecular recognition site; other site 547048003475 dimerization interface [polypeptide binding]; other site 547048003476 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048003477 DNA binding site [nucleotide binding] 547048003478 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 547048003479 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048003480 dimerization interface [polypeptide binding]; other site 547048003481 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048003482 dimer interface [polypeptide binding]; other site 547048003483 phosphorylation site [posttranslational modification] 547048003484 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048003485 ATP binding site [chemical binding]; other site 547048003486 Mg2+ binding site [ion binding]; other site 547048003487 G-X-G motif; other site 547048003488 putative transporter; Provisional; Region: PRK10504 547048003489 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048003490 putative substrate translocation pore; other site 547048003491 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 547048003492 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048003493 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048003494 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 547048003495 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 547048003496 Walker A/P-loop; other site 547048003497 ATP binding site [chemical binding]; other site 547048003498 Q-loop/lid; other site 547048003499 ABC transporter signature motif; other site 547048003500 Walker B; other site 547048003501 D-loop; other site 547048003502 H-loop/switch region; other site 547048003503 TOBE domain; Region: TOBE_2; pfam08402 547048003504 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 547048003505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048003506 DNA-binding site [nucleotide binding]; DNA binding site 547048003507 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048003508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003509 homodimer interface [polypeptide binding]; other site 547048003510 catalytic residue [active] 547048003511 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 547048003512 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547048003513 inhibitor-cofactor binding pocket; inhibition site 547048003514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003515 catalytic residue [active] 547048003516 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 547048003517 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048003518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003519 dimer interface [polypeptide binding]; other site 547048003520 conserved gate region; other site 547048003521 putative PBP binding loops; other site 547048003522 ABC-ATPase subunit interface; other site 547048003523 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 547048003524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003525 dimer interface [polypeptide binding]; other site 547048003526 conserved gate region; other site 547048003527 putative PBP binding loops; other site 547048003528 ABC-ATPase subunit interface; other site 547048003529 putative chaperone; Provisional; Region: PRK11678 547048003530 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 547048003531 nucleotide binding site [chemical binding]; other site 547048003532 putative NEF/HSP70 interaction site [polypeptide binding]; other site 547048003533 SBD interface [polypeptide binding]; other site 547048003534 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 547048003535 MgtE intracellular N domain; Region: MgtE_N; smart00924 547048003536 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 547048003537 Divalent cation transporter; Region: MgtE; cl00786 547048003538 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 547048003539 exopolyphosphatase; Provisional; Region: PRK10854 547048003540 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048003541 nucleotide binding site [chemical binding]; other site 547048003542 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 547048003543 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 547048003544 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 547048003545 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 547048003546 putative active site [active] 547048003547 catalytic site [active] 547048003548 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 547048003549 domain interface [polypeptide binding]; other site 547048003550 active site 547048003551 catalytic site [active] 547048003552 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 547048003553 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 547048003554 Walker A/P-loop; other site 547048003555 ATP binding site [chemical binding]; other site 547048003556 Q-loop/lid; other site 547048003557 ABC transporter signature motif; other site 547048003558 Walker B; other site 547048003559 D-loop; other site 547048003560 H-loop/switch region; other site 547048003561 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 547048003562 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 547048003563 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 547048003564 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 547048003565 active site 547048003566 substrate binding site [chemical binding]; other site 547048003567 cosubstrate binding site; other site 547048003568 catalytic site [active] 547048003569 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 547048003570 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 547048003571 dimerization interface [polypeptide binding]; other site 547048003572 putative ATP binding site [chemical binding]; other site 547048003573 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048003574 active site 547048003575 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003576 DNA replication initiation factor; Provisional; Region: PRK08084 547048003577 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 547048003578 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 547048003579 ArsC family; Region: ArsC; pfam03960 547048003580 catalytic residues [active] 547048003581 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 547048003582 Peptidase family M48; Region: Peptidase_M48; pfam01435 547048003583 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 547048003584 Domain of unknown function DUF20; Region: UPF0118; pfam01594 547048003585 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 547048003586 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547048003587 catalytic triad [active] 547048003588 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 547048003589 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 547048003590 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 547048003591 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 547048003592 dihydrodipicolinate synthase; Region: dapA; TIGR00674 547048003593 dimer interface [polypeptide binding]; other site 547048003594 active site 547048003595 catalytic residue [active] 547048003596 lipoprotein; Provisional; Region: PRK11679 547048003597 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 547048003598 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003599 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 547048003600 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 547048003601 ATP binding site [chemical binding]; other site 547048003602 active site 547048003603 substrate binding site [chemical binding]; other site 547048003604 Predicted metalloprotease [General function prediction only]; Region: COG2321 547048003605 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 547048003606 Predicted membrane protein [Function unknown]; Region: COG2707 547048003607 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 547048003608 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 547048003609 Helicase; Region: Helicase_RecD; pfam05127 547048003610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048003611 Coenzyme A binding pocket [chemical binding]; other site 547048003612 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 547048003613 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 547048003614 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 547048003615 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 547048003616 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 547048003617 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 547048003618 metal binding site [ion binding]; metal-binding site 547048003619 dimer interface [polypeptide binding]; other site 547048003620 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 547048003621 ArsC family; Region: ArsC; pfam03960 547048003622 putative catalytic residues [active] 547048003623 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 547048003624 TPR motif; other site 547048003625 Tetratrico peptide repeat; Region: TPR_5; pfam12688 547048003626 binding surface 547048003627 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 547048003628 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 547048003629 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 547048003630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003631 dimer interface [polypeptide binding]; other site 547048003632 conserved gate region; other site 547048003633 ABC-ATPase subunit interface; other site 547048003634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003635 dimer interface [polypeptide binding]; other site 547048003636 conserved gate region; other site 547048003637 putative PBP binding loops; other site 547048003638 ABC-ATPase subunit interface; other site 547048003639 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 547048003640 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 547048003641 Walker A/P-loop; other site 547048003642 ATP binding site [chemical binding]; other site 547048003643 Q-loop/lid; other site 547048003644 ABC transporter signature motif; other site 547048003645 Walker B; other site 547048003646 D-loop; other site 547048003647 H-loop/switch region; other site 547048003648 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 547048003649 Sulfatase; Region: Sulfatase; pfam00884 547048003650 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 547048003651 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048003652 FeS/SAM binding site; other site 547048003653 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 547048003654 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 547048003655 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 547048003656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4519 547048003657 transcriptional regulator NarP; Provisional; Region: PRK10403 547048003658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048003659 active site 547048003660 phosphorylation site [posttranslational modification] 547048003661 intermolecular recognition site; other site 547048003662 dimerization interface [polypeptide binding]; other site 547048003663 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048003664 DNA binding residues [nucleotide binding] 547048003665 dimerization interface [polypeptide binding]; other site 547048003666 ferredoxin-type protein; Provisional; Region: PRK10194 547048003667 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 547048003668 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 547048003669 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 547048003670 [4Fe-4S] binding site [ion binding]; other site 547048003671 molybdopterin cofactor binding site; other site 547048003672 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 547048003673 molybdopterin cofactor binding site; other site 547048003674 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 547048003675 cytochrome c-type protein NapC; Provisional; Region: PRK10617 547048003676 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 547048003677 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 547048003678 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 547048003679 dimer interface [polypeptide binding]; other site 547048003680 ADP-ribose binding site [chemical binding]; other site 547048003681 active site 547048003682 nudix motif; other site 547048003683 metal binding site [ion binding]; metal-binding site 547048003684 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 547048003685 Malic enzyme, N-terminal domain; Region: malic; pfam00390 547048003686 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 547048003687 putative NAD(P) binding site [chemical binding]; other site 547048003688 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 547048003689 hypothetical protein; Validated; Region: PRK00124 547048003690 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 547048003691 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 547048003692 putative acetyltransferase; Provisional; Region: PRK03624 547048003693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048003694 Coenzyme A binding pocket [chemical binding]; other site 547048003695 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 547048003696 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048003697 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048003698 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 547048003699 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 547048003700 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 547048003701 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 547048003702 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 547048003703 Class I aldolases; Region: Aldolase_Class_I; cl17187 547048003704 catalytic residue [active] 547048003705 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 547048003706 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 547048003707 putative active site cavity [active] 547048003708 Type III secretion system leucine rich repeat protein; Region: TTSSLRR; pfam12468 547048003709 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 547048003710 Leucine-rich repeats; other site 547048003711 Substrate binding site [chemical binding]; other site 547048003712 Leucine rich repeat; Region: LRR_8; pfam13855 547048003713 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 547048003714 N-acetylmannosamine kinase; Provisional; Region: PRK05082 547048003715 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048003716 nucleotide binding site [chemical binding]; other site 547048003717 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 547048003718 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 547048003719 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048003720 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048003721 putative active site [active] 547048003722 putative sialic acid transporter; Provisional; Region: PRK03893 547048003723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048003724 putative substrate translocation pore; other site 547048003725 potential frameshift: common BLAST hit: gi|294504766|ref|YP_003568828.1| thiosulfate-binding protein 547048003726 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048003727 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048003728 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547048003729 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 547048003730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003731 dimer interface [polypeptide binding]; other site 547048003732 conserved gate region; other site 547048003733 putative PBP binding loops; other site 547048003734 ABC-ATPase subunit interface; other site 547048003735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003736 dimer interface [polypeptide binding]; other site 547048003737 conserved gate region; other site 547048003738 putative PBP binding loops; other site 547048003739 ABC-ATPase subunit interface; other site 547048003740 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 547048003741 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 547048003742 Walker A/P-loop; other site 547048003743 ATP binding site [chemical binding]; other site 547048003744 Q-loop/lid; other site 547048003745 ABC transporter signature motif; other site 547048003746 Walker B; other site 547048003747 D-loop; other site 547048003748 H-loop/switch region; other site 547048003749 TOBE-like domain; Region: TOBE_3; pfam12857 547048003750 cysteine synthase B; Region: cysM; TIGR01138 547048003751 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 547048003752 dimer interface [polypeptide binding]; other site 547048003753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003754 catalytic residue [active] 547048003755 type III secretion protein GogB; Provisional; Region: PRK15386 547048003756 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547048003757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048003758 active site 547048003759 phosphorylation site [posttranslational modification] 547048003760 intermolecular recognition site; other site 547048003761 dimerization interface [polypeptide binding]; other site 547048003762 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048003763 DNA binding site [nucleotide binding] 547048003764 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 547048003765 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048003766 dimer interface [polypeptide binding]; other site 547048003767 phosphorylation site [posttranslational modification] 547048003768 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048003769 ATP binding site [chemical binding]; other site 547048003770 Mg2+ binding site [ion binding]; other site 547048003771 G-X-G motif; other site 547048003772 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048003773 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 547048003774 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 547048003775 metal ion-dependent adhesion site (MIDAS); other site 547048003776 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 547048003777 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048003778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003779 homodimer interface [polypeptide binding]; other site 547048003780 catalytic residue [active] 547048003781 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 547048003782 peptidase; Provisional; Region: PRK15173 547048003783 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 547048003784 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 547048003785 active site 547048003786 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 547048003787 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 547048003788 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 547048003789 Na binding site [ion binding]; other site 547048003790 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 547048003791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048003792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048003793 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547048003794 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 547048003795 active site residue [active] 547048003796 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 547048003797 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547048003798 Walker A/P-loop; other site 547048003799 ATP binding site [chemical binding]; other site 547048003800 Q-loop/lid; other site 547048003801 ABC transporter signature motif; other site 547048003802 Walker B; other site 547048003803 D-loop; other site 547048003804 H-loop/switch region; other site 547048003805 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547048003806 FtsX-like permease family; Region: FtsX; pfam02687 547048003807 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547048003808 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048003809 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048003810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547048003811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048003812 active site 547048003813 phosphorylation site [posttranslational modification] 547048003814 intermolecular recognition site; other site 547048003815 dimerization interface [polypeptide binding]; other site 547048003816 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048003817 DNA binding site [nucleotide binding] 547048003818 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048003819 dimerization interface [polypeptide binding]; other site 547048003820 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048003821 dimer interface [polypeptide binding]; other site 547048003822 phosphorylation site [posttranslational modification] 547048003823 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048003824 ATP binding site [chemical binding]; other site 547048003825 Mg2+ binding site [ion binding]; other site 547048003826 G-X-G motif; other site 547048003827 Transposase IS200 like; Region: Y1_Tnp; cl00848 547048003828 transposase/IS protein; Provisional; Region: PRK09183 547048003829 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048003830 Walker A motif; other site 547048003831 ATP binding site [chemical binding]; other site 547048003832 Walker B motif; other site 547048003833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048003834 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048003835 DNA-binding interface [nucleotide binding]; DNA binding site 547048003836 Integrase core domain; Region: rve; pfam00665 547048003837 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003838 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 547048003839 HPr interaction site; other site 547048003840 glycerol kinase (GK) interaction site [polypeptide binding]; other site 547048003841 active site 547048003842 phosphorylation site [posttranslational modification] 547048003843 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 547048003844 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 547048003845 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 547048003846 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 547048003847 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 547048003848 dimerization domain swap beta strand [polypeptide binding]; other site 547048003849 regulatory protein interface [polypeptide binding]; other site 547048003850 active site 547048003851 regulatory phosphorylation site [posttranslational modification]; other site 547048003852 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 547048003853 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 547048003854 dimer interface [polypeptide binding]; other site 547048003855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003856 catalytic residue [active] 547048003857 putative sulfate transport protein CysZ; Validated; Region: PRK04949 547048003858 cell division protein ZipA; Provisional; Region: PRK03427 547048003859 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 547048003860 FtsZ protein binding site [polypeptide binding]; other site 547048003861 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 547048003862 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 547048003863 nucleotide binding pocket [chemical binding]; other site 547048003864 K-X-D-G motif; other site 547048003865 catalytic site [active] 547048003866 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 547048003867 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 547048003868 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 547048003869 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 547048003870 Dimer interface [polypeptide binding]; other site 547048003871 BRCT sequence motif; other site 547048003872 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 547048003873 FlxA-like protein; Region: FlxA; pfam14282 547048003874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 547048003875 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048003876 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 547048003877 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 547048003878 HIGH motif; other site 547048003879 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 547048003880 active site 547048003881 KMSKS motif; other site 547048003882 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 547048003883 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 547048003884 Nucleoside recognition; Region: Gate; pfam07670 547048003885 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 547048003886 manganese transport protein MntH; Reviewed; Region: PRK00701 547048003887 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 547048003888 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 547048003889 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048003890 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048003891 active site 547048003892 catalytic tetrad [active] 547048003893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048003894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048003895 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 547048003896 dimerization interface [polypeptide binding]; other site 547048003897 Predicted membrane protein [Function unknown]; Region: COG4125 547048003898 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 547048003899 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 547048003900 glucokinase, proteobacterial type; Region: glk; TIGR00749 547048003901 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048003902 nucleotide binding site [chemical binding]; other site 547048003903 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 547048003904 aminotransferase; Validated; Region: PRK08175 547048003905 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048003906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048003907 homodimer interface [polypeptide binding]; other site 547048003908 catalytic residue [active] 547048003909 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 547048003910 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 547048003911 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 547048003912 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 547048003913 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 547048003914 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 547048003915 4Fe-4S binding domain; Region: Fer4; cl02805 547048003916 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 547048003917 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 547048003918 putative [Fe4-S4] binding site [ion binding]; other site 547048003919 putative molybdopterin cofactor binding site [chemical binding]; other site 547048003920 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 547048003921 putative molybdopterin cofactor binding site; other site 547048003922 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 547048003923 Predicted membrane protein [Function unknown]; Region: COG4331 547048003924 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 547048003925 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 547048003926 Walker A/P-loop; other site 547048003927 ATP binding site [chemical binding]; other site 547048003928 Q-loop/lid; other site 547048003929 ABC transporter signature motif; other site 547048003930 Walker B; other site 547048003931 D-loop; other site 547048003932 H-loop/switch region; other site 547048003933 potential frameshift: common BLAST hit: gi|45442362|ref|NP_993901.1| iron ABC transporter permease 547048003934 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 547048003935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003936 dimer interface [polypeptide binding]; other site 547048003937 conserved gate region; other site 547048003938 putative PBP binding loops; other site 547048003939 ABC-ATPase subunit interface; other site 547048003940 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 547048003941 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048003942 dimer interface [polypeptide binding]; other site 547048003943 conserved gate region; other site 547048003944 ABC-ATPase subunit interface; other site 547048003945 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 547048003946 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 547048003947 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 547048003948 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048003949 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048003950 catalytic residue [active] 547048003951 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 547048003952 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048003953 DNA binding residues [nucleotide binding] 547048003954 dimerization interface [polypeptide binding]; other site 547048003955 Uncharacterized conserved protein [Function unknown]; Region: COG5435 547048003956 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 547048003957 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048003958 ligand binding site [chemical binding]; other site 547048003959 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 547048003960 Fimbrial protein; Region: Fimbrial; pfam00419 547048003961 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048003962 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048003963 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 547048003964 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 547048003965 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 547048003966 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 547048003967 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048003968 Walker A motif; other site 547048003969 ATP binding site [chemical binding]; other site 547048003970 Walker B motif; other site 547048003971 arginine finger; other site 547048003972 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048003973 Walker A motif; other site 547048003974 ATP binding site [chemical binding]; other site 547048003975 Walker B motif; other site 547048003976 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547048003977 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048003978 putative chaperone protein EcpD; Provisional; Region: PRK09926 547048003979 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048003980 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048003981 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048003982 PapC N-terminal domain; Region: PapC_N; pfam13954 547048003983 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048003984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048003985 MULE transposase domain; Region: MULE; pfam10551 547048003986 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048003987 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048003988 PapC C-terminal domain; Region: PapC_C; pfam13953 547048003989 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048003990 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 547048003991 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 547048003992 Protein of unknown function (DUF877); Region: DUF877; pfam05943 547048003993 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 547048003994 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 547048003995 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 547048003996 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 547048003997 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 547048003998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048003999 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048004000 DNA-binding interface [nucleotide binding]; DNA binding site 547048004001 Integrase core domain; Region: rve; pfam00665 547048004002 transposase/IS protein; Provisional; Region: PRK09183 547048004003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048004004 Walker A motif; other site 547048004005 ATP binding site [chemical binding]; other site 547048004006 Walker B motif; other site 547048004007 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 547048004008 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048004009 ligand binding site [chemical binding]; other site 547048004010 potential frameshift: common BLAST hit: gi|108812384|ref|YP_648151.1| membrane protein 547048004011 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 547048004012 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 547048004013 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 547048004014 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 547048004015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 547048004016 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048004017 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048004018 PAAR motif; Region: PAAR_motif; pfam05488 547048004019 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 547048004020 ImpE protein; Region: ImpE; pfam07024 547048004021 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 547048004022 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 547048004023 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 547048004024 PhnA protein; Region: PhnA; pfam03831 547048004025 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 547048004026 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 547048004027 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 547048004028 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 547048004029 Walker A/P-loop; other site 547048004030 ATP binding site [chemical binding]; other site 547048004031 Q-loop/lid; other site 547048004032 ABC transporter signature motif; other site 547048004033 Walker B; other site 547048004034 D-loop; other site 547048004035 H-loop/switch region; other site 547048004036 heme exporter protein CcmB; Region: ccmB; TIGR01190 547048004037 heme exporter protein CcmC; Region: ccmC; TIGR01191 547048004038 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 547048004039 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 547048004040 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 547048004041 catalytic residues [active] 547048004042 central insert; other site 547048004043 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 547048004044 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 547048004045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 547048004046 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 547048004047 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 547048004048 dimer interface [polypeptide binding]; other site 547048004049 active site 547048004050 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 547048004051 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 547048004052 substrate binding site [chemical binding]; other site 547048004053 oxyanion hole (OAH) forming residues; other site 547048004054 trimer interface [polypeptide binding]; other site 547048004055 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 547048004056 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 547048004057 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 547048004058 catalytic core [active] 547048004059 hypothetical protein; Provisional; Region: PRK04946 547048004060 Smr domain; Region: Smr; pfam01713 547048004061 HemK family putative methylases; Region: hemK_fam; TIGR00536 547048004062 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048004063 S-adenosylmethionine binding site [chemical binding]; other site 547048004064 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 547048004065 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 547048004066 Tetramer interface [polypeptide binding]; other site 547048004067 active site 547048004068 FMN-binding site [chemical binding]; other site 547048004069 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 547048004070 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 547048004071 hypothetical protein; Provisional; Region: PRK10621 547048004072 Predicted permeases [General function prediction only]; Region: COG0730 547048004073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 547048004074 YfcL protein; Region: YfcL; pfam08891 547048004075 Uncharacterized conserved protein [Function unknown]; Region: COG4121 547048004076 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 547048004077 hydroxyglutarate oxidase; Provisional; Region: PRK11728 547048004078 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 547048004079 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 547048004080 dimer interface [polypeptide binding]; other site 547048004081 active site 547048004082 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004083 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 547048004084 aspartate racemase; Region: asp_race; TIGR00035 547048004085 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048004086 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 547048004087 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 547048004088 EamA-like transporter family; Region: EamA; pfam00892 547048004089 Cupin domain; Region: Cupin_2; pfam07883 547048004090 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 547048004091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048004092 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 547048004093 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 547048004094 ligand binding site [chemical binding]; other site 547048004095 NAD binding site [chemical binding]; other site 547048004096 catalytic site [active] 547048004097 homodimer interface [polypeptide binding]; other site 547048004098 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 547048004099 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 547048004100 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 547048004101 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 547048004102 dimerization interface 3.5A [polypeptide binding]; other site 547048004103 active site 547048004104 hypothetical protein; Provisional; Region: PRK10847 547048004105 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 547048004106 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 547048004107 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 547048004108 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 547048004109 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048004110 cell division protein DedD; Provisional; Region: PRK11633 547048004111 Sporulation related domain; Region: SPOR; pfam05036 547048004112 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 547048004113 colicin V production protein; Provisional; Region: PRK10845 547048004114 amidophosphoribosyltransferase; Provisional; Region: PRK09246 547048004115 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 547048004116 active site 547048004117 tetramer interface [polypeptide binding]; other site 547048004118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048004119 active site 547048004120 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 547048004121 Flavoprotein; Region: Flavoprotein; pfam02441 547048004122 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 547048004123 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048004124 substrate binding pocket [chemical binding]; other site 547048004125 membrane-bound complex binding site; other site 547048004126 hinge residues; other site 547048004127 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048004128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004129 dimer interface [polypeptide binding]; other site 547048004130 conserved gate region; other site 547048004131 putative PBP binding loops; other site 547048004132 ABC-ATPase subunit interface; other site 547048004133 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048004134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004135 dimer interface [polypeptide binding]; other site 547048004136 conserved gate region; other site 547048004137 putative PBP binding loops; other site 547048004138 ABC-ATPase subunit interface; other site 547048004139 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 547048004140 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 547048004141 Walker A/P-loop; other site 547048004142 ATP binding site [chemical binding]; other site 547048004143 Q-loop/lid; other site 547048004144 ABC transporter signature motif; other site 547048004145 Walker B; other site 547048004146 D-loop; other site 547048004147 H-loop/switch region; other site 547048004148 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 547048004149 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 547048004150 putative NAD(P) binding site [chemical binding]; other site 547048004151 putative active site [active] 547048004152 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048004153 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 547048004154 active site 547048004155 metal binding site [ion binding]; metal-binding site 547048004156 homotetramer interface [polypeptide binding]; other site 547048004157 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 547048004158 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 547048004159 nudix motif; other site 547048004160 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 547048004161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048004162 MULE transposase domain; Region: MULE; pfam10551 547048004163 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 547048004164 active site 547048004165 P-loop; other site 547048004166 phosphorylation site [posttranslational modification] 547048004167 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 547048004168 active site 547048004169 phosphorylation site [posttranslational modification] 547048004170 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048004171 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048004172 DNA binding site [nucleotide binding] 547048004173 domain linker motif; other site 547048004174 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 547048004175 putative dimerization interface [polypeptide binding]; other site 547048004176 putative ligand binding site [chemical binding]; other site 547048004177 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004178 phosphate acetyltransferase; Reviewed; Region: PRK05632 547048004179 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 547048004180 DRTGG domain; Region: DRTGG; pfam07085 547048004181 phosphate acetyltransferase; Region: pta; TIGR00651 547048004182 propionate/acetate kinase; Provisional; Region: PRK12379 547048004183 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 547048004184 hypothetical protein; Provisional; Region: PRK01816 547048004185 hypothetical protein; Validated; Region: PRK05445 547048004186 putative phosphatase; Provisional; Region: PRK11587 547048004187 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048004188 motif II; other site 547048004189 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 547048004190 transmembrane helices; other site 547048004191 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 547048004192 TrkA-C domain; Region: TrkA_C; pfam02080 547048004193 TrkA-C domain; Region: TrkA_C; pfam02080 547048004194 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 547048004195 5'-nucleotidase; Provisional; Region: PRK03826 547048004196 aminotransferase AlaT; Validated; Region: PRK09265 547048004197 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048004198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048004199 homodimer interface [polypeptide binding]; other site 547048004200 catalytic residue [active] 547048004201 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 547048004202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048004203 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 547048004204 putative dimerization interface [polypeptide binding]; other site 547048004205 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 547048004206 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 547048004207 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 547048004208 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 547048004209 NADH dehydrogenase subunit D; Validated; Region: PRK06075 547048004210 NADH dehydrogenase subunit E; Validated; Region: PRK07539 547048004211 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 547048004212 putative dimer interface [polypeptide binding]; other site 547048004213 [2Fe-2S] cluster binding site [ion binding]; other site 547048004214 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 547048004215 SLBB domain; Region: SLBB; pfam10531 547048004216 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 547048004217 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 547048004218 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048004219 catalytic loop [active] 547048004220 iron binding site [ion binding]; other site 547048004221 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 547048004222 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 547048004223 [4Fe-4S] binding site [ion binding]; other site 547048004224 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 547048004225 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 547048004226 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 547048004227 4Fe-4S binding domain; Region: Fer4; pfam00037 547048004228 4Fe-4S binding domain; Region: Fer4; pfam00037 547048004229 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 547048004230 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 547048004231 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 547048004232 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 547048004233 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 547048004234 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547048004235 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 547048004236 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547048004237 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 547048004238 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 547048004239 RNA polymerase I-specific transcription-initiation factor; Region: Rrn6; pfam10214 547048004240 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 547048004241 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 547048004242 AAA domain; Region: AAA_33; pfam13671 547048004243 ATP-binding site [chemical binding]; other site 547048004244 Gluconate-6-phosphate binding site [chemical binding]; other site 547048004245 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 547048004246 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 547048004247 NADP binding site [chemical binding]; other site 547048004248 homodimer interface [polypeptide binding]; other site 547048004249 active site 547048004250 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 547048004252 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 547048004253 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 547048004254 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048004255 DNA binding site [nucleotide binding] 547048004256 domain linker motif; other site 547048004257 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 547048004258 putative ligand binding site [chemical binding]; other site 547048004259 putative dimerization interface [polypeptide binding]; other site 547048004260 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 547048004261 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 547048004262 putative ligand binding site [chemical binding]; other site 547048004263 NAD binding site [chemical binding]; other site 547048004264 catalytic site [active] 547048004265 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048004267 D-galactonate transporter; Region: 2A0114; TIGR00893 547048004268 putative substrate translocation pore; other site 547048004269 Uncharacterized conserved protein [Function unknown]; Region: COG4702 547048004270 phosphogluconate dehydratase; Validated; Region: PRK09054 547048004271 6-phosphogluconate dehydratase; Region: edd; TIGR01196 547048004272 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 547048004273 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 547048004274 chorismate binding enzyme; Region: Chorismate_bind; cl10555 547048004275 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 547048004276 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 547048004277 dimer interface [polypeptide binding]; other site 547048004278 tetramer interface [polypeptide binding]; other site 547048004279 PYR/PP interface [polypeptide binding]; other site 547048004280 TPP binding site [chemical binding]; other site 547048004281 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 547048004282 TPP-binding site; other site 547048004283 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 547048004284 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 547048004285 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 547048004286 substrate binding site [chemical binding]; other site 547048004287 oxyanion hole (OAH) forming residues; other site 547048004288 trimer interface [polypeptide binding]; other site 547048004289 O-succinylbenzoate synthase; Provisional; Region: PRK05105 547048004290 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 547048004291 active site 547048004292 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 547048004293 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 547048004294 acyl-activating enzyme (AAE) consensus motif; other site 547048004295 putative AMP binding site [chemical binding]; other site 547048004296 putative active site [active] 547048004297 putative CoA binding site [chemical binding]; other site 547048004298 glycosyl transferase family protein; Provisional; Region: PRK08136 547048004299 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 547048004300 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004301 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 547048004302 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 547048004303 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048004304 S-adenosylmethionine binding site [chemical binding]; other site 547048004305 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004306 transposase/IS protein; Provisional; Region: PRK09183 547048004307 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048004308 Walker A motif; other site 547048004309 ATP binding site [chemical binding]; other site 547048004310 Walker B motif; other site 547048004311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048004312 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048004313 DNA-binding interface [nucleotide binding]; DNA binding site 547048004314 Integrase core domain; Region: rve; pfam00665 547048004315 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048004316 PAS domain; Region: PAS_9; pfam13426 547048004317 putative active site [active] 547048004318 heme pocket [chemical binding]; other site 547048004319 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048004320 PAS domain; Region: PAS_9; pfam13426 547048004321 putative active site [active] 547048004322 heme pocket [chemical binding]; other site 547048004323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048004324 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 547048004325 dimer interface [polypeptide binding]; other site 547048004326 putative CheW interface [polypeptide binding]; other site 547048004327 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 547048004328 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 547048004329 Walker A/P-loop; other site 547048004330 ATP binding site [chemical binding]; other site 547048004331 Q-loop/lid; other site 547048004332 ABC transporter signature motif; other site 547048004333 Walker B; other site 547048004334 D-loop; other site 547048004335 H-loop/switch region; other site 547048004336 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048004337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004338 dimer interface [polypeptide binding]; other site 547048004339 conserved gate region; other site 547048004340 putative PBP binding loops; other site 547048004341 ABC-ATPase subunit interface; other site 547048004342 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 547048004343 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048004344 substrate binding pocket [chemical binding]; other site 547048004345 membrane-bound complex binding site; other site 547048004346 hinge residues; other site 547048004347 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 547048004348 TPR motif; other site 547048004349 binding surface 547048004350 Uncharacterized conserved protein [Function unknown]; Region: COG1434 547048004351 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 547048004352 putative active site [active] 547048004353 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 547048004354 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 547048004355 dimerization interface [polypeptide binding]; other site 547048004356 DPS ferroxidase diiron center [ion binding]; other site 547048004357 ion pore; other site 547048004358 putative acetyltransferase YhhY; Provisional; Region: PRK10140 547048004359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048004360 Coenzyme A binding pocket [chemical binding]; other site 547048004361 threonine and homoserine efflux system; Provisional; Region: PRK10532 547048004362 outer membrane protein X; Provisional; Region: ompX; PRK09408 547048004363 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: COG3965 547048004364 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 547048004365 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 547048004366 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 547048004367 putative NAD(P) binding site [chemical binding]; other site 547048004368 catalytic Zn binding site [ion binding]; other site 547048004369 structural Zn binding site [ion binding]; other site 547048004370 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048004371 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 547048004372 putative ligand binding site [chemical binding]; other site 547048004373 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048004374 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048004375 Walker A/P-loop; other site 547048004376 ATP binding site [chemical binding]; other site 547048004377 Q-loop/lid; other site 547048004378 ABC transporter signature motif; other site 547048004379 Walker B; other site 547048004380 D-loop; other site 547048004381 H-loop/switch region; other site 547048004382 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048004383 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048004384 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048004385 TM-ABC transporter signature motif; other site 547048004386 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048004387 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048004388 DNA binding site [nucleotide binding] 547048004389 domain linker motif; other site 547048004390 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 547048004391 dimerization interface [polypeptide binding]; other site 547048004392 ligand binding site [chemical binding]; other site 547048004393 transcriptional activator TtdR; Provisional; Region: PRK09801 547048004394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048004395 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 547048004396 putative effector binding pocket; other site 547048004397 putative dimerization interface [polypeptide binding]; other site 547048004398 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 547048004399 tartrate dehydrogenase; Region: TTC; TIGR02089 547048004400 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004401 putative transporter; Provisional; Region: PRK09950 547048004402 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 547048004403 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 547048004404 FMN-binding pocket [chemical binding]; other site 547048004405 flavin binding motif; other site 547048004406 phosphate binding motif [ion binding]; other site 547048004407 beta-alpha-beta structure motif; other site 547048004408 NAD binding pocket [chemical binding]; other site 547048004409 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048004410 catalytic loop [active] 547048004411 iron binding site [ion binding]; other site 547048004412 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 547048004413 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 547048004414 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 547048004415 haemagglutination activity domain; Region: Haemagg_act; pfam05860 547048004416 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048004417 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048004418 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048004419 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048004420 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 547048004421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4304 547048004422 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 547048004423 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 547048004424 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 547048004425 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048004426 Walker A/P-loop; other site 547048004427 ATP binding site [chemical binding]; other site 547048004428 Q-loop/lid; other site 547048004429 ABC transporter signature motif; other site 547048004430 Walker B; other site 547048004431 D-loop; other site 547048004432 H-loop/switch region; other site 547048004433 TOBE domain; Region: TOBE_2; pfam08402 547048004434 phosphomannomutase CpsG; Provisional; Region: PRK15414 547048004435 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 547048004436 active site 547048004437 substrate binding site [chemical binding]; other site 547048004438 metal binding site [ion binding]; metal-binding site 547048004439 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048004440 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048004441 DNA binding site [nucleotide binding] 547048004442 domain linker motif; other site 547048004443 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 547048004444 putative dimerization interface [polypeptide binding]; other site 547048004445 putative ligand binding site [chemical binding]; other site 547048004446 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048004447 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048004448 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 547048004449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004450 dimer interface [polypeptide binding]; other site 547048004451 putative PBP binding loops; other site 547048004452 ABC-ATPase subunit interface; other site 547048004453 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048004454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004455 dimer interface [polypeptide binding]; other site 547048004456 conserved gate region; other site 547048004457 putative PBP binding loops; other site 547048004458 ABC-ATPase subunit interface; other site 547048004459 Predicted glycosylase [Carbohydrate transport and metabolism]; Region: COG2152 547048004460 active site 547048004461 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 547048004462 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 547048004463 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547048004464 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 547048004465 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 547048004466 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 547048004467 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09675 547048004468 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09676 547048004469 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 547048004470 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09674 547048004471 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048004472 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048004473 active site 547048004474 catalytic tetrad [active] 547048004475 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 547048004476 Formaldehyde-activating enzyme nesessary for methanogenesis [Energy production and conversion]; Region: COG1795 547048004477 benzoate transport; Region: 2A0115; TIGR00895 547048004478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048004479 putative substrate translocation pore; other site 547048004480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048004481 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 547048004482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048004483 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048004484 dimerization interface [polypeptide binding]; other site 547048004485 Autoinducer binding domain; Region: Autoind_bind; pfam03472 547048004486 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048004487 DNA binding residues [nucleotide binding] 547048004488 dimerization interface [polypeptide binding]; other site 547048004489 Autoinducer synthetase; Region: Autoind_synth; pfam00765 547048004490 EamA-like transporter family; Region: EamA; pfam00892 547048004491 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 547048004492 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 547048004493 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 547048004494 active site residue [active] 547048004495 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 547048004496 Domain of unknown function DUF20; Region: UPF0118; pfam01594 547048004497 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 547048004498 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048004499 DNA binding residues [nucleotide binding] 547048004500 dimerization interface [polypeptide binding]; other site 547048004501 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 547048004502 hydroxyglutarate oxidase; Provisional; Region: PRK11728 547048004503 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048004504 MULE transposase domain; Region: MULE; pfam10551 547048004505 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 547048004506 DNA damage-inducible protein I; Provisional; Region: PRK10597 547048004507 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 547048004508 active site 547048004509 substrate binding pocket [chemical binding]; other site 547048004510 dimer interface [polypeptide binding]; other site 547048004511 Uncharacterized conserved protein [Function unknown]; Region: COG1359 547048004512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048004513 MULE transposase domain; Region: MULE; pfam10551 547048004514 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 547048004515 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 547048004516 homodimer interface [polypeptide binding]; other site 547048004517 oligonucleotide binding site [chemical binding]; other site 547048004518 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 547048004519 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048004520 RNA binding surface [nucleotide binding]; other site 547048004521 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 547048004522 active site 547048004523 Maf-like protein; Region: Maf; pfam02545 547048004524 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 547048004525 active site 547048004526 dimer interface [polypeptide binding]; other site 547048004527 hypothetical protein; Provisional; Region: PRK11193 547048004528 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 547048004529 Fatty acid/phospholipid biosynthesis enzyme [Lipid metabolism]; Region: PlsX; COG0416 547048004530 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 547048004531 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 547048004532 dimer interface [polypeptide binding]; other site 547048004533 active site 547048004534 CoA binding pocket [chemical binding]; other site 547048004535 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 547048004536 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 547048004537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 547048004538 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 547048004539 NAD(P) binding site [chemical binding]; other site 547048004540 homotetramer interface [polypeptide binding]; other site 547048004541 homodimer interface [polypeptide binding]; other site 547048004542 active site 547048004543 acyl carrier protein; Provisional; Region: acpP; PRK00982 547048004544 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 547048004545 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 547048004546 dimer interface [polypeptide binding]; other site 547048004547 active site 547048004548 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048004549 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 547048004550 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 547048004551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048004552 catalytic residue [active] 547048004553 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004554 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 547048004555 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 547048004556 dimerization interface [polypeptide binding]; other site 547048004557 thymidylate kinase; Validated; Region: tmk; PRK00698 547048004558 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 547048004559 TMP-binding site; other site 547048004560 ATP-binding site [chemical binding]; other site 547048004561 DNA polymerase III subunit delta'; Validated; Region: PRK07993 547048004562 DNA polymerase III subunit delta'; Validated; Region: PRK08485 547048004563 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 547048004564 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 547048004565 active site 547048004566 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 547048004567 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 547048004568 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 547048004569 active site turn [active] 547048004570 phosphorylation site [posttranslational modification] 547048004571 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048004572 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 547048004573 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 547048004574 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 547048004575 shikimate binding site; other site 547048004576 NAD(P) binding site [chemical binding]; other site 547048004577 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 547048004578 nucleotide binding site/active site [active] 547048004579 HIT family signature motif; other site 547048004580 catalytic residue [active] 547048004581 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 547048004582 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 547048004583 putative dimer interface [polypeptide binding]; other site 547048004584 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 547048004585 thiamine kinase; Region: ycfN_thiK; TIGR02721 547048004586 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 547048004587 active site 547048004588 substrate binding site [chemical binding]; other site 547048004589 ATP binding site [chemical binding]; other site 547048004590 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 547048004591 beta-hexosaminidase; Provisional; Region: PRK05337 547048004592 hypothetical protein; Provisional; Region: PRK04940 547048004593 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 547048004594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048004595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048004596 MULE transposase domain; Region: MULE; pfam10551 547048004597 hypothetical protein; Provisional; Region: PRK11280 547048004598 transcription-repair coupling factor; Provisional; Region: PRK10689 547048004599 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 547048004600 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048004601 ATP binding site [chemical binding]; other site 547048004602 putative Mg++ binding site [ion binding]; other site 547048004603 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048004604 nucleotide binding region [chemical binding]; other site 547048004605 ATP-binding site [chemical binding]; other site 547048004606 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 547048004607 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 547048004608 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547048004609 FtsX-like permease family; Region: FtsX; pfam02687 547048004610 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 547048004611 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547048004612 Walker A/P-loop; other site 547048004613 ATP binding site [chemical binding]; other site 547048004614 Q-loop/lid; other site 547048004615 ABC transporter signature motif; other site 547048004616 Walker B; other site 547048004617 D-loop; other site 547048004618 H-loop/switch region; other site 547048004619 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 547048004620 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547048004621 FtsX-like permease family; Region: FtsX; pfam02687 547048004622 fructokinase; Reviewed; Region: PRK09557 547048004623 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048004624 nucleotide binding site [chemical binding]; other site 547048004625 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 547048004626 NAD-dependent deacetylase; Provisional; Region: PRK00481 547048004627 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 547048004628 NAD+ binding site [chemical binding]; other site 547048004629 substrate binding site [chemical binding]; other site 547048004630 Zn binding site [ion binding]; other site 547048004631 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 547048004632 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 547048004633 metal binding site [ion binding]; metal-binding site 547048004634 dimer interface [polypeptide binding]; other site 547048004635 Uncharacterized conserved protein [Function unknown]; Region: COG2850 547048004636 Cupin-like domain; Region: Cupin_8; pfam13621 547048004637 sensor protein PhoQ; Provisional; Region: PRK10815 547048004638 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 547048004639 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 547048004640 dimer interface [polypeptide binding]; other site 547048004641 phosphorylation site [posttranslational modification] 547048004642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048004643 ATP binding site [chemical binding]; other site 547048004644 Mg2+ binding site [ion binding]; other site 547048004645 G-X-G motif; other site 547048004646 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 547048004647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048004648 active site 547048004649 phosphorylation site [posttranslational modification] 547048004650 intermolecular recognition site; other site 547048004651 dimerization interface [polypeptide binding]; other site 547048004652 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048004653 DNA binding site [nucleotide binding] 547048004654 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 547048004655 adenylosuccinate lyase; Provisional; Region: PRK09285 547048004656 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 547048004657 tetramer interface [polypeptide binding]; other site 547048004658 active site 547048004659 putative lysogenization regulator; Reviewed; Region: PRK00218 547048004660 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 547048004661 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 547048004662 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 547048004663 nudix motif; other site 547048004664 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 547048004665 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 547048004666 probable active site [active] 547048004667 isocitrate dehydrogenase; Validated; Region: PRK07362 547048004668 isocitrate dehydrogenase; Reviewed; Region: PRK07006 547048004669 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048004670 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048004671 DNA binding site [nucleotide binding] 547048004672 domain linker motif; other site 547048004673 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 547048004674 putative dimerization interface [polypeptide binding]; other site 547048004675 putative ligand binding site [chemical binding]; other site 547048004676 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048004677 PAS domain; Region: PAS_9; pfam13426 547048004678 putative active site [active] 547048004679 heme pocket [chemical binding]; other site 547048004680 HAMP domain; Region: HAMP; pfam00672 547048004681 dimerization interface [polypeptide binding]; other site 547048004682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 547048004683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048004684 dimer interface [polypeptide binding]; other site 547048004685 putative CheW interface [polypeptide binding]; other site 547048004686 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 547048004687 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 547048004688 NADP binding site [chemical binding]; other site 547048004689 Predicted transcriptional regulators [Transcription]; Region: COG1733 547048004690 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 547048004691 potential frameshift: common BLAST hit: gi|294504156|ref|YP_003568218.1| histidine acid phosphatase 547048004692 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 547048004693 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 547048004694 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 547048004695 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 547048004696 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 547048004697 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 547048004698 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 547048004699 putative DNA binding site [nucleotide binding]; other site 547048004700 putative Zn2+ binding site [ion binding]; other site 547048004701 AsnC family; Region: AsnC_trans_reg; pfam01037 547048004702 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 547048004703 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 547048004704 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 547048004705 NAD(P) binding site [chemical binding]; other site 547048004706 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 547048004707 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 547048004708 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 547048004709 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 547048004710 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 547048004711 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048004712 DNA-binding site [nucleotide binding]; DNA binding site 547048004713 RNA-binding motif; other site 547048004714 hypothetical protein; Provisional; Region: PRK10708 547048004715 magnesium transport protein MgtC; Provisional; Region: PRK15385 547048004716 MgtC family; Region: MgtC; pfam02308 547048004717 potential frameshift: common BLAST hit: gi|294504147|ref|YP_003568209.1| Mg(2+) transport ATPase protein B 547048004718 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 547048004719 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048004720 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 547048004721 Soluble P-type ATPase [General function prediction only]; Region: COG4087 547048004722 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 547048004723 transcriptional activator FlhC; Provisional; Region: PRK12722 547048004724 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 547048004725 flagellar motor protein MotA; Validated; Region: PRK09110 547048004726 flagellar motor protein MotB; Validated; Region: motB; PRK09041 547048004727 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 547048004728 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048004729 ligand binding site [chemical binding]; other site 547048004730 chemotaxis protein CheA; Provisional; Region: PRK10547 547048004731 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 547048004732 putative binding surface; other site 547048004733 active site 547048004734 CheY binding; Region: CheY-binding; pfam09078 547048004735 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 547048004736 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048004737 ATP binding site [chemical binding]; other site 547048004738 Mg2+ binding site [ion binding]; other site 547048004739 G-X-G motif; other site 547048004740 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 547048004741 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 547048004742 putative CheA interaction surface; other site 547048004743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048004744 putative substrate translocation pore; other site 547048004745 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 547048004746 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 547048004747 homotrimer interaction site [polypeptide binding]; other site 547048004748 putative active site [active] 547048004749 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 547048004750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 547048004751 YheO-like PAS domain; Region: PAS_6; pfam08348 547048004752 HTH domain; Region: HTH_22; pfam13309 547048004753 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 547048004754 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048004755 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048004756 Predicted membrane protein [Function unknown]; Region: COG5373 547048004757 hypothetical protein; Provisional; Region: PRK10215 547048004758 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 547048004759 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 547048004760 dimer interface [polypeptide binding]; other site 547048004761 ligand binding site [chemical binding]; other site 547048004762 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048004763 dimerization interface [polypeptide binding]; other site 547048004764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048004765 dimer interface [polypeptide binding]; other site 547048004766 putative CheW interface [polypeptide binding]; other site 547048004767 methyl-accepting protein IV; Provisional; Region: PRK09793 547048004768 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 547048004769 dimer interface [polypeptide binding]; other site 547048004770 ligand binding site [chemical binding]; other site 547048004771 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048004772 dimerization interface [polypeptide binding]; other site 547048004773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048004774 dimer interface [polypeptide binding]; other site 547048004775 putative CheW interface [polypeptide binding]; other site 547048004776 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 547048004777 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 547048004778 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048004779 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 547048004780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048004781 active site 547048004782 phosphorylation site [posttranslational modification] 547048004783 intermolecular recognition site; other site 547048004784 dimerization interface [polypeptide binding]; other site 547048004785 CheB methylesterase; Region: CheB_methylest; pfam01339 547048004786 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 547048004787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048004788 active site 547048004789 phosphorylation site [posttranslational modification] 547048004790 intermolecular recognition site; other site 547048004791 dimerization interface [polypeptide binding]; other site 547048004792 chemotaxis regulator CheZ; Provisional; Region: PRK11166 547048004793 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 547048004794 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 547048004795 amidase catalytic site [active] 547048004796 Zn binding residues [ion binding]; other site 547048004797 substrate binding site [chemical binding]; other site 547048004798 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 547048004799 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 547048004800 Haemagglutinin; Region: HIM; pfam05662 547048004801 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 547048004802 trimer interface [polypeptide binding]; other site 547048004803 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 547048004804 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 547048004805 YadA-like C-terminal region; Region: YadA; pfam03895 547048004806 alanine racemase; Reviewed; Region: PRK13340 547048004807 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 547048004808 active site 547048004809 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 547048004810 dimer interface [polypeptide binding]; other site 547048004811 substrate binding site [chemical binding]; other site 547048004812 catalytic residues [active] 547048004813 Lipase; Region: Lipase; pfam00151 547048004814 Patatin-like phospholipase; Region: Patatin; pfam01734 547048004815 nucleophile elbow; other site 547048004816 transposase/IS protein; Provisional; Region: PRK09183 547048004817 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048004818 Walker A motif; other site 547048004819 ATP binding site [chemical binding]; other site 547048004820 Walker B motif; other site 547048004821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048004822 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048004823 DNA-binding interface [nucleotide binding]; DNA binding site 547048004824 Integrase core domain; Region: rve; pfam00665 547048004825 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 547048004826 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 547048004827 putative catalytic cysteine [active] 547048004828 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 547048004829 putative active site [active] 547048004830 metal binding site [ion binding]; metal-binding site 547048004831 hypothetical protein; Provisional; Region: PRK11111 547048004832 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 547048004833 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 547048004834 peptide binding site [polypeptide binding]; other site 547048004835 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 547048004836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004837 dimer interface [polypeptide binding]; other site 547048004838 conserved gate region; other site 547048004839 putative PBP binding loops; other site 547048004840 ABC-ATPase subunit interface; other site 547048004841 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 547048004842 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 547048004843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048004844 dimer interface [polypeptide binding]; other site 547048004845 conserved gate region; other site 547048004846 ABC-ATPase subunit interface; other site 547048004847 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 547048004848 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048004849 Walker A/P-loop; other site 547048004850 ATP binding site [chemical binding]; other site 547048004851 Q-loop/lid; other site 547048004852 ABC transporter signature motif; other site 547048004853 Walker B; other site 547048004854 D-loop; other site 547048004855 H-loop/switch region; other site 547048004856 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 547048004857 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 547048004858 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048004859 Walker A/P-loop; other site 547048004860 ATP binding site [chemical binding]; other site 547048004861 Q-loop/lid; other site 547048004862 ABC transporter signature motif; other site 547048004863 Walker B; other site 547048004864 D-loop; other site 547048004865 H-loop/switch region; other site 547048004866 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 547048004867 dsDNA-mimic protein; Reviewed; Region: PRK05094 547048004868 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 547048004869 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 547048004870 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 547048004871 putative active site [active] 547048004872 catalytic site [active] 547048004873 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 547048004874 putative active site [active] 547048004875 catalytic site [active] 547048004876 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048004877 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 547048004878 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 547048004879 YciI-like protein; Reviewed; Region: PRK11370 547048004880 transport protein TonB; Provisional; Region: PRK10819 547048004881 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 547048004882 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048004883 MULE transposase domain; Region: MULE; pfam10551 547048004884 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 547048004885 intracellular septation protein A; Reviewed; Region: PRK00259 547048004886 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 547048004887 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 547048004888 Sulfate transporter family; Region: Sulfate_transp; pfam00916 547048004889 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 547048004890 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 547048004891 hypothetical protein; Provisional; Region: PRK02868 547048004892 outer membrane protein W; Provisional; Region: PRK10959 547048004893 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 547048004894 BON domain; Region: BON; pfam04972 547048004895 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 547048004896 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 547048004897 substrate binding site [chemical binding]; other site 547048004898 active site 547048004899 catalytic residues [active] 547048004900 heterodimer interface [polypeptide binding]; other site 547048004901 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 547048004902 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 547048004903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048004904 catalytic residue [active] 547048004905 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 547048004906 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 547048004907 active site 547048004908 ribulose/triose binding site [chemical binding]; other site 547048004909 phosphate binding site [ion binding]; other site 547048004910 substrate (anthranilate) binding pocket [chemical binding]; other site 547048004911 product (indole) binding pocket [chemical binding]; other site 547048004912 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 547048004913 active site 547048004914 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 547048004915 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 547048004916 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 547048004917 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 547048004918 Glutamine amidotransferase class-I; Region: GATase; pfam00117 547048004919 glutamine binding [chemical binding]; other site 547048004920 catalytic triad [active] 547048004921 anthranilate synthase component I; Provisional; Region: PRK13564 547048004922 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 547048004923 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 547048004924 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 547048004925 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 547048004926 active site 547048004927 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 547048004928 hypothetical protein; Provisional; Region: PRK11630 547048004929 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 547048004930 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048004931 RNA binding surface [nucleotide binding]; other site 547048004932 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 547048004933 probable active site [active] 547048004934 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 547048004935 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 547048004936 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 547048004937 homodimer interface [polypeptide binding]; other site 547048004938 Walker A motif; other site 547048004939 ATP binding site [chemical binding]; other site 547048004940 hydroxycobalamin binding site [chemical binding]; other site 547048004941 Walker B motif; other site 547048004942 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 547048004943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048004944 NAD(P) binding site [chemical binding]; other site 547048004945 active site 547048004946 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 547048004947 putative inner membrane peptidase; Provisional; Region: PRK11778 547048004948 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 547048004949 tandem repeat interface [polypeptide binding]; other site 547048004950 oligomer interface [polypeptide binding]; other site 547048004951 active site residues [active] 547048004952 hypothetical protein; Provisional; Region: PRK11037 547048004953 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 547048004954 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 547048004955 active site 547048004956 interdomain interaction site; other site 547048004957 putative metal-binding site [ion binding]; other site 547048004958 nucleotide binding site [chemical binding]; other site 547048004959 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 547048004960 domain I; other site 547048004961 DNA binding groove [nucleotide binding] 547048004962 phosphate binding site [ion binding]; other site 547048004963 domain II; other site 547048004964 domain III; other site 547048004965 nucleotide binding site [chemical binding]; other site 547048004966 catalytic site [active] 547048004967 domain IV; other site 547048004968 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 547048004969 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 547048004970 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 547048004971 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 547048004972 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 547048004973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048004974 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 547048004975 substrate binding site [chemical binding]; other site 547048004976 putative dimerization interface [polypeptide binding]; other site 547048004977 aconitate hydratase; Validated; Region: PRK09277 547048004978 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 547048004979 substrate binding site [chemical binding]; other site 547048004980 ligand binding site [chemical binding]; other site 547048004981 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 547048004982 substrate binding site [chemical binding]; other site 547048004983 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 547048004984 dimerization interface [polypeptide binding]; other site 547048004985 active site 547048004986 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 547048004987 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 547048004988 active site 547048004989 Predicted membrane protein [Function unknown]; Region: COG3771 547048004990 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 547048004991 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 547048004992 TPR motif; other site 547048004993 binding surface 547048004994 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547048004995 binding surface 547048004996 TPR motif; other site 547048004997 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 547048004998 active site 547048004999 dimer interface [polypeptide binding]; other site 547048005000 translation initiation factor Sui1; Validated; Region: PRK06824 547048005001 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 547048005002 putative rRNA binding site [nucleotide binding]; other site 547048005003 lipoprotein; Provisional; Region: PRK10540 547048005004 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 547048005005 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 547048005006 intersubunit interface [polypeptide binding]; other site 547048005007 active site 547048005008 Zn2+ binding site [ion binding]; other site 547048005009 Uncharacterized conserved protein [Function unknown]; Region: COG5460 547048005010 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 547048005011 active site 547048005012 intersubunit interactions; other site 547048005013 catalytic residue [active] 547048005014 Uncharacterized small protein [Function unknown]; Region: COG2879 547048005015 carbon starvation protein A; Provisional; Region: PRK15015 547048005016 Carbon starvation protein CstA; Region: CstA; pfam02554 547048005017 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 547048005018 exoribonuclease II; Provisional; Region: PRK05054 547048005019 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 547048005020 RNB domain; Region: RNB; pfam00773 547048005021 S1 RNA binding domain; Region: S1; pfam00575 547048005022 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 547048005023 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005024 putative substrate translocation pore; other site 547048005025 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547048005026 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 547048005027 putative NAD(P) binding site [chemical binding]; other site 547048005028 active site 547048005029 putative substrate binding site [chemical binding]; other site 547048005030 endonuclease III; Provisional; Region: PRK10702 547048005031 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547048005032 minor groove reading motif; other site 547048005033 helix-hairpin-helix signature motif; other site 547048005034 substrate binding pocket [chemical binding]; other site 547048005035 active site 547048005036 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 547048005037 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 547048005038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 547048005039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048005040 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 547048005041 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 547048005042 SLBB domain; Region: SLBB; pfam10531 547048005043 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547048005044 electron transport complex protein RnfB; Provisional; Region: PRK05113 547048005045 Putative Fe-S cluster; Region: FeS; pfam04060 547048005046 4Fe-4S binding domain; Region: Fer4; pfam00037 547048005047 electron transport complex protein RsxA; Provisional; Region: PRK05151 547048005048 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 547048005049 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 547048005050 putative active site [active] 547048005051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048005052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048005053 Walker A/P-loop; other site 547048005054 ATP binding site [chemical binding]; other site 547048005055 Q-loop/lid; other site 547048005056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048005057 Walker B; other site 547048005058 D-loop; other site 547048005059 H-loop/switch region; other site 547048005060 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 547048005061 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048005062 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048005063 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 547048005064 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 547048005065 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048005066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048005067 Walker A/P-loop; other site 547048005068 ATP binding site [chemical binding]; other site 547048005069 Q-loop/lid; other site 547048005070 ABC transporter signature motif; other site 547048005071 Walker B; other site 547048005072 D-loop; other site 547048005073 H-loop/switch region; other site 547048005074 L-arabinose isomerase; Provisional; Region: PRK02929 547048005075 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 547048005076 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 547048005077 trimer interface [polypeptide binding]; other site 547048005078 putative substrate binding site [chemical binding]; other site 547048005079 putative metal binding site [ion binding]; other site 547048005080 ribulokinase; Provisional; Region: PRK04123 547048005081 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 547048005082 N- and C-terminal domain interface [polypeptide binding]; other site 547048005083 active site 547048005084 MgATP binding site [chemical binding]; other site 547048005085 catalytic site [active] 547048005086 metal binding site [ion binding]; metal-binding site 547048005087 carbohydrate binding site [chemical binding]; other site 547048005088 homodimer interface [polypeptide binding]; other site 547048005089 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 547048005090 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 547048005091 ligand binding site [chemical binding]; other site 547048005092 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 547048005093 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048005094 Walker A/P-loop; other site 547048005095 ATP binding site [chemical binding]; other site 547048005096 Q-loop/lid; other site 547048005097 ABC transporter signature motif; other site 547048005098 Walker B; other site 547048005099 D-loop; other site 547048005100 H-loop/switch region; other site 547048005101 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048005102 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048005103 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048005104 TM-ABC transporter signature motif; other site 547048005105 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 547048005106 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 547048005107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048005108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048005109 putative oxidoreductase; Provisional; Region: PRK11579 547048005110 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048005111 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 547048005112 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 547048005113 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 547048005114 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 547048005115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 547048005116 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 547048005117 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 547048005118 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 547048005119 fumarate hydratase; Reviewed; Region: fumC; PRK00485 547048005120 Class II fumarases; Region: Fumarase_classII; cd01362 547048005121 active site 547048005122 tetramer interface [polypeptide binding]; other site 547048005123 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 547048005124 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 547048005125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005126 putative substrate translocation pore; other site 547048005127 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 547048005128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048005129 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 547048005130 dimerization interface [polypeptide binding]; other site 547048005131 substrate binding pocket [chemical binding]; other site 547048005132 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 547048005133 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 547048005134 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048005135 nucleotide binding site [chemical binding]; other site 547048005136 putative dithiobiotin synthetase; Provisional; Region: PRK12374 547048005137 AAA domain; Region: AAA_26; pfam13500 547048005138 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 547048005139 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 547048005140 Cl- selectivity filter; other site 547048005141 Cl- binding residues [ion binding]; other site 547048005142 pore gating glutamate residue; other site 547048005143 dimer interface [polypeptide binding]; other site 547048005144 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048005145 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048005146 DNA binding site [nucleotide binding] 547048005147 domain linker motif; other site 547048005148 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 547048005149 dimerization interface (closed form) [polypeptide binding]; other site 547048005150 ligand binding site [chemical binding]; other site 547048005151 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048005152 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 547048005153 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 547048005154 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 547048005155 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 547048005156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048005157 dimer interface [polypeptide binding]; other site 547048005158 conserved gate region; other site 547048005159 putative PBP binding loops; other site 547048005160 ABC-ATPase subunit interface; other site 547048005161 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 547048005162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048005163 ABC transporter signature motif; other site 547048005164 Walker B; other site 547048005165 D-loop; other site 547048005166 H-loop/switch region; other site 547048005167 AMP nucleosidase; Provisional; Region: PRK08292 547048005168 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 547048005169 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 547048005170 ribonuclease E; Reviewed; Region: rne; PRK10811 547048005171 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 547048005172 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 547048005173 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 547048005174 putative valine binding site [chemical binding]; other site 547048005175 dimer interface [polypeptide binding]; other site 547048005176 dUMP phosphatase; Provisional; Region: PRK09449 547048005177 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048005178 motif II; other site 547048005179 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 547048005180 tellurite resistance protein terB; Region: terB; cd07176 547048005181 putative metal binding site [ion binding]; other site 547048005182 alkaline phosphatase; Provisional; Region: PRK10518 547048005183 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 547048005184 dimer interface [polypeptide binding]; other site 547048005185 active site 547048005186 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 547048005187 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 547048005188 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 547048005189 DNA binding site [nucleotide binding] 547048005190 active site 547048005191 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 547048005192 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 547048005193 ligand binding site [chemical binding]; other site 547048005194 flexible hinge region; other site 547048005195 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 547048005196 putative switch regulator; other site 547048005197 non-specific DNA interactions [nucleotide binding]; other site 547048005198 DNA binding site [nucleotide binding] 547048005199 sequence specific DNA binding site [nucleotide binding]; other site 547048005200 putative cAMP binding site [chemical binding]; other site 547048005201 universal stress protein UspE; Provisional; Region: PRK11175 547048005202 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547048005203 Ligand Binding Site [chemical binding]; other site 547048005204 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547048005205 Ligand Binding Site [chemical binding]; other site 547048005206 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048005207 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 547048005208 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 547048005209 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 547048005210 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 547048005211 ligand binding site [chemical binding]; other site 547048005212 homodimer interface [polypeptide binding]; other site 547048005213 NAD(P) binding site [chemical binding]; other site 547048005214 trimer interface B [polypeptide binding]; other site 547048005215 trimer interface A [polypeptide binding]; other site 547048005216 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 547048005217 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 547048005218 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 547048005219 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 547048005220 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 547048005221 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 547048005222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048005223 active site 547048005224 phosphorylation site [posttranslational modification] 547048005225 intermolecular recognition site; other site 547048005226 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048005227 DNA binding site [nucleotide binding] 547048005228 sensor protein RstB; Provisional; Region: PRK10604 547048005229 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048005230 dimerization interface [polypeptide binding]; other site 547048005231 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048005232 dimer interface [polypeptide binding]; other site 547048005233 phosphorylation site [posttranslational modification] 547048005234 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048005235 ATP binding site [chemical binding]; other site 547048005236 Mg2+ binding site [ion binding]; other site 547048005237 G-X-G motif; other site 547048005238 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 547048005239 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 547048005240 active site 547048005241 Zn binding site [ion binding]; other site 547048005242 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048005243 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048005244 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048005245 Anthrax toxin LF subunit; Region: Anthrax_toxA; pfam03497 547048005246 Transposase; Region: DEDD_Tnp_IS110; pfam01548 547048005247 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 547048005248 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 547048005249 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 547048005250 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048005251 non-specific DNA binding site [nucleotide binding]; other site 547048005252 salt bridge; other site 547048005253 sequence-specific DNA binding site [nucleotide binding]; other site 547048005254 Phage-related protein [Function unknown]; Region: COG4679 547048005255 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 547048005256 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048005257 ATP binding site [chemical binding]; other site 547048005258 putative Mg++ binding site [ion binding]; other site 547048005259 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048005260 nucleotide binding region [chemical binding]; other site 547048005261 ATP-binding site [chemical binding]; other site 547048005262 Helicase associated domain (HA2); Region: HA2; pfam04408 547048005263 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 547048005264 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 547048005265 azoreductase; Reviewed; Region: PRK00170 547048005266 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 547048005267 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 547048005268 MarR family; Region: MarR_2; pfam12802 547048005269 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 547048005270 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 547048005271 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 547048005272 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 547048005273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 547048005274 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 547048005275 hypothetical protein; Provisional; Region: PRK10695 547048005276 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 547048005277 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 547048005278 putative ligand binding site [chemical binding]; other site 547048005279 putative NAD binding site [chemical binding]; other site 547048005280 catalytic site [active] 547048005281 heat-inducible protein; Provisional; Region: PRK10449 547048005282 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 547048005283 Domain of unknown function (DUF333); Region: DUF333; pfam03891 547048005284 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 547048005285 MgtC family; Region: MgtC; pfam02308 547048005286 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 547048005287 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 547048005288 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 547048005289 dimer interface [polypeptide binding]; other site 547048005290 PYR/PP interface [polypeptide binding]; other site 547048005291 TPP binding site [chemical binding]; other site 547048005292 substrate binding site [chemical binding]; other site 547048005293 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 547048005294 Domain of unknown function; Region: EKR; pfam10371 547048005295 4Fe-4S binding domain; Region: Fer4_6; pfam12837 547048005296 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547048005297 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 547048005298 TPP-binding site [chemical binding]; other site 547048005299 dimer interface [polypeptide binding]; other site 547048005300 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 547048005301 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 547048005302 Ligand Binding Site [chemical binding]; other site 547048005303 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 547048005304 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 547048005305 substrate binding pocket [chemical binding]; other site 547048005306 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547048005307 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048005308 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 547048005309 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 547048005310 DNA binding residues [nucleotide binding] 547048005311 dimer interface [polypeptide binding]; other site 547048005312 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 547048005313 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 547048005314 Cl binding site [ion binding]; other site 547048005315 oligomer interface [polypeptide binding]; other site 547048005316 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 547048005317 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 547048005318 peptide binding site [polypeptide binding]; other site 547048005319 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 547048005320 murein peptide amidase A; Provisional; Region: PRK10602 547048005321 active site 547048005322 Zn binding site [ion binding]; other site 547048005323 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 547048005324 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 547048005325 active site 547048005326 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 547048005327 dimer interface [polypeptide binding]; other site 547048005328 catalytic triad [active] 547048005329 peroxidatic and resolving cysteines [active] 547048005330 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048005331 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 547048005332 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 547048005333 PAS domain; Region: PAS; smart00091 547048005334 putative active site [active] 547048005335 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005336 Walker A motif; other site 547048005337 ATP binding site [chemical binding]; other site 547048005338 Walker B motif; other site 547048005339 arginine finger; other site 547048005340 Uncharacterized conserved protein [Function unknown]; Region: COG5642 547048005341 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 547048005342 Uncharacterized conserved protein [Function unknown]; Region: COG5654 547048005343 hypothetical protein; Provisional; Region: PRK05415 547048005344 Domain of unknown function (DUF697); Region: DUF697; cl12064 547048005345 Predicted ATPase [General function prediction only]; Region: COG3106 547048005346 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; pfam09584 547048005347 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 547048005348 phage shock protein C; Region: phageshock_pspC; TIGR02978 547048005349 phage shock protein B; Provisional; Region: pspB; PRK09458 547048005350 phage shock protein PspA; Provisional; Region: PRK10698 547048005351 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 547048005352 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005353 Walker A motif; other site 547048005354 ATP binding site [chemical binding]; other site 547048005355 Walker B motif; other site 547048005356 arginine finger; other site 547048005357 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547048005358 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048005359 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 547048005360 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 547048005361 peptide binding site [polypeptide binding]; other site 547048005362 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 547048005363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048005364 dimer interface [polypeptide binding]; other site 547048005365 conserved gate region; other site 547048005366 putative PBP binding loops; other site 547048005367 ABC-ATPase subunit interface; other site 547048005368 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 547048005369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048005370 putative PBP binding loops; other site 547048005371 dimer interface [polypeptide binding]; other site 547048005372 ABC-ATPase subunit interface; other site 547048005373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 547048005374 Uncharacterized conserved protein [Function unknown]; Region: COG2128 547048005375 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 547048005376 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 547048005377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005378 putative substrate translocation pore; other site 547048005379 POT family; Region: PTR2; pfam00854 547048005380 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 547048005381 hypothetical protein; Provisional; Region: PRK10515 547048005382 glutathionine S-transferase; Provisional; Region: PRK10542 547048005383 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 547048005384 C-terminal domain interface [polypeptide binding]; other site 547048005385 GSH binding site (G-site) [chemical binding]; other site 547048005386 dimer interface [polypeptide binding]; other site 547048005387 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 547048005388 dimer interface [polypeptide binding]; other site 547048005389 N-terminal domain interface [polypeptide binding]; other site 547048005390 substrate binding pocket (H-site) [chemical binding]; other site 547048005391 pyridoxamine kinase; Validated; Region: PRK05756 547048005392 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 547048005393 dimer interface [polypeptide binding]; other site 547048005394 pyridoxal binding site [chemical binding]; other site 547048005395 ATP binding site [chemical binding]; other site 547048005396 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 547048005397 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 547048005398 active site 547048005399 HIGH motif; other site 547048005400 dimer interface [polypeptide binding]; other site 547048005401 KMSKS motif; other site 547048005402 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048005403 RNA binding surface [nucleotide binding]; other site 547048005404 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 547048005405 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 547048005406 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 547048005407 Predicted periplasmic protein [General function prediction only]; Region: COG3895 547048005408 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 547048005409 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 547048005410 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 547048005411 transcriptional regulator SlyA; Provisional; Region: PRK03573 547048005412 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 547048005413 putative metal dependent hydrolase; Provisional; Region: PRK11598 547048005414 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 547048005415 Sulfatase; Region: Sulfatase; pfam00884 547048005416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 547048005417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048005418 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 547048005419 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 547048005420 FMN binding site [chemical binding]; other site 547048005421 active site 547048005422 substrate binding site [chemical binding]; other site 547048005423 catalytic residue [active] 547048005424 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048005425 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048005426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 547048005427 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 547048005428 dimer interface [polypeptide binding]; other site 547048005429 active site 547048005430 metal binding site [ion binding]; metal-binding site 547048005431 glutathione binding site [chemical binding]; other site 547048005432 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 547048005433 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 547048005434 dimer interface [polypeptide binding]; other site 547048005435 catalytic site [active] 547048005436 putative active site [active] 547048005437 putative substrate binding site [chemical binding]; other site 547048005438 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048005439 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 547048005440 putative GSH binding site [chemical binding]; other site 547048005441 catalytic residues [active] 547048005442 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 547048005443 NlpC/P60 family; Region: NLPC_P60; pfam00877 547048005444 superoxide dismutase; Provisional; Region: PRK10543 547048005445 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 547048005446 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 547048005447 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 547048005448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048005449 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048005450 dimerization interface [polypeptide binding]; other site 547048005451 putative transporter; Provisional; Region: PRK11043 547048005452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005453 putative substrate translocation pore; other site 547048005454 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 547048005455 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048005456 S-adenosylmethionine binding site [chemical binding]; other site 547048005457 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 547048005458 Lumazine binding domain; Region: Lum_binding; pfam00677 547048005459 Lumazine binding domain; Region: Lum_binding; pfam00677 547048005460 multidrug efflux protein; Reviewed; Region: PRK01766 547048005461 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 547048005462 cation binding site [ion binding]; other site 547048005463 pyruvate kinase; Provisional; Region: PRK09206 547048005464 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 547048005465 domain interfaces; other site 547048005466 active site 547048005467 murein lipoprotein; Provisional; Region: PRK15396 547048005468 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048005469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048005470 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048005471 DNA-binding interface [nucleotide binding]; DNA binding site 547048005472 Integrase core domain; Region: rve; pfam00665 547048005473 transposase/IS protein; Provisional; Region: PRK09183 547048005474 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005475 Walker A motif; other site 547048005476 ATP binding site [chemical binding]; other site 547048005477 Walker B motif; other site 547048005478 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 547048005479 L,D-transpeptidase; Provisional; Region: PRK10190 547048005480 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 547048005481 cysteine desufuration protein SufE; Provisional; Region: PRK09296 547048005482 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 547048005483 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 547048005484 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048005485 catalytic residue [active] 547048005486 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 547048005487 FeS assembly protein SufD; Region: sufD; TIGR01981 547048005488 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 547048005489 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 547048005490 Walker A/P-loop; other site 547048005491 ATP binding site [chemical binding]; other site 547048005492 Q-loop/lid; other site 547048005493 ABC transporter signature motif; other site 547048005494 Walker B; other site 547048005495 D-loop; other site 547048005496 H-loop/switch region; other site 547048005497 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 547048005498 putative ABC transporter; Region: ycf24; CHL00085 547048005499 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 547048005500 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 547048005501 CoenzymeA binding site [chemical binding]; other site 547048005502 subunit interaction site [polypeptide binding]; other site 547048005503 PHB binding site; other site 547048005504 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 547048005505 FAD binding domain; Region: FAD_binding_4; pfam01565 547048005506 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 547048005507 putative inner membrane protein; Provisional; Region: PRK10983 547048005508 Domain of unknown function DUF20; Region: UPF0118; pfam01594 547048005509 phosphoenolpyruvate synthase; Validated; Region: PRK06464 547048005510 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 547048005511 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 547048005512 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 547048005513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 547048005514 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 547048005515 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 547048005516 Uncharacterized conserved protein [Function unknown]; Region: COG0397 547048005517 hypothetical protein; Validated; Region: PRK00029 547048005518 hypothetical protein; Validated; Region: PRK00029 547048005519 Uncharacterized conserved protein [Function unknown]; Region: COG0397 547048005520 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 547048005521 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 547048005522 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 547048005523 NlpC/P60 family; Region: NLPC_P60; pfam00877 547048005524 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 547048005525 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 547048005526 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 547048005527 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 547048005528 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 547048005529 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 547048005530 putative active site [active] 547048005531 putative catalytic site [active] 547048005532 putative Zn binding site [ion binding]; other site 547048005533 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 547048005534 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 547048005535 active site 547048005536 substrate binding site [chemical binding]; other site 547048005537 cosubstrate binding site; other site 547048005538 catalytic site [active] 547048005539 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 547048005540 active site 547048005541 hexamer interface [polypeptide binding]; other site 547048005542 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 547048005543 NAD binding site [chemical binding]; other site 547048005544 substrate binding site [chemical binding]; other site 547048005545 active site 547048005546 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 547048005547 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 547048005548 Ligand binding site; other site 547048005549 Putative Catalytic site; other site 547048005550 DXD motif; other site 547048005551 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 547048005552 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 547048005553 inhibitor-cofactor binding pocket; inhibition site 547048005554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048005555 catalytic residue [active] 547048005556 ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]; Region: BtuD; COG4138 547048005557 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048005558 Walker A/P-loop; other site 547048005559 ATP binding site [chemical binding]; other site 547048005560 Q-loop/lid; other site 547048005561 ABC transporter signature motif; other site 547048005562 Walker B; other site 547048005563 D-loop; other site 547048005564 H-loop/switch region; other site 547048005565 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 547048005566 catalytic residues [active] 547048005567 dimer interface [polypeptide binding]; other site 547048005568 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 547048005569 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048005570 ABC-ATPase subunit interface; other site 547048005571 dimer interface [polypeptide binding]; other site 547048005572 putative PBP binding regions; other site 547048005573 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 547048005574 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 547048005575 IHF dimer interface [polypeptide binding]; other site 547048005576 IHF - DNA interface [nucleotide binding]; other site 547048005577 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 547048005578 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 547048005579 putative tRNA-binding site [nucleotide binding]; other site 547048005580 B3/4 domain; Region: B3_4; pfam03483 547048005581 tRNA synthetase B5 domain; Region: B5; smart00874 547048005582 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 547048005583 dimer interface [polypeptide binding]; other site 547048005584 motif 1; other site 547048005585 motif 3; other site 547048005586 motif 2; other site 547048005587 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 547048005588 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 547048005589 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 547048005590 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 547048005591 dimer interface [polypeptide binding]; other site 547048005592 motif 1; other site 547048005593 active site 547048005594 motif 2; other site 547048005595 motif 3; other site 547048005596 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 547048005597 23S rRNA binding site [nucleotide binding]; other site 547048005598 L21 binding site [polypeptide binding]; other site 547048005599 L13 binding site [polypeptide binding]; other site 547048005600 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 547048005601 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 547048005602 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 547048005603 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 547048005604 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 547048005605 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 547048005606 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 547048005607 active site 547048005608 dimer interface [polypeptide binding]; other site 547048005609 motif 1; other site 547048005610 motif 2; other site 547048005611 motif 3; other site 547048005612 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 547048005613 anticodon binding site; other site 547048005614 KTSC domain; Region: KTSC; pfam13619 547048005615 inner membrane protein; Provisional; Region: PRK10995 547048005616 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 547048005617 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048005618 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048005619 catalytic residue [active] 547048005620 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 547048005621 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 547048005622 metal binding site [ion binding]; metal-binding site 547048005623 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 547048005624 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 547048005625 Phosphotransferase enzyme family; Region: APH; pfam01636 547048005626 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 547048005627 active site 547048005628 ATP binding site [chemical binding]; other site 547048005629 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 547048005630 YniB-like protein; Region: YniB; pfam14002 547048005631 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 547048005632 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048005633 motif II; other site 547048005634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048005635 MULE transposase domain; Region: MULE; pfam10551 547048005636 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 547048005637 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 547048005638 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 547048005639 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 547048005640 NADP binding site [chemical binding]; other site 547048005641 homodimer interface [polypeptide binding]; other site 547048005642 active site 547048005643 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 547048005644 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 547048005645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048005646 Walker A/P-loop; other site 547048005647 ATP binding site [chemical binding]; other site 547048005648 Q-loop/lid; other site 547048005649 ABC transporter signature motif; other site 547048005650 Walker B; other site 547048005651 D-loop; other site 547048005652 H-loop/switch region; other site 547048005653 TOBE domain; Region: TOBE_2; pfam08402 547048005654 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048005655 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048005656 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 547048005657 inner membrane protein; Provisional; Region: PRK11648 547048005658 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 547048005659 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 547048005660 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 547048005661 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 547048005662 amidase catalytic site [active] 547048005663 Zn binding residues [ion binding]; other site 547048005664 substrate binding site [chemical binding]; other site 547048005665 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 547048005666 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 547048005667 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547048005668 dimerization interface [polypeptide binding]; other site 547048005669 putative Zn2+ binding site [ion binding]; other site 547048005670 putative DNA binding site [nucleotide binding]; other site 547048005671 Bacterial transcriptional regulator; Region: IclR; pfam01614 547048005672 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 547048005673 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 547048005674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005675 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048005676 putative substrate translocation pore; other site 547048005677 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048005678 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048005679 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048005680 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048005681 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048005682 PapC N-terminal domain; Region: PapC_N; pfam13954 547048005683 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048005684 PapC C-terminal domain; Region: PapC_C; pfam13953 547048005685 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 547048005686 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048005687 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048005688 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048005689 heat shock protein HtpX; Provisional; Region: PRK05457 547048005690 carboxy-terminal protease; Provisional; Region: PRK11186 547048005691 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 547048005692 protein binding site [polypeptide binding]; other site 547048005693 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 547048005694 Catalytic dyad [active] 547048005695 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 547048005696 ProP expression regulator; Provisional; Region: PRK04950 547048005697 ProQ/FINO family; Region: ProQ; pfam04352 547048005698 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 547048005699 GAF domain; Region: GAF_2; pfam13185 547048005700 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 547048005701 Paraquat-inducible protein A; Region: PqiA; pfam04403 547048005702 Paraquat-inducible protein A; Region: PqiA; pfam04403 547048005703 Uncharacterized secreted protein [Function unknown]; Region: COG5430 547048005704 Uncharacterized secreted protein [Function unknown]; Region: COG5430 547048005705 Uncharacterized secreted protein [Function unknown]; Region: COG5430 547048005706 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048005707 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048005708 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048005709 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048005710 PapC C-terminal domain; Region: PapC_C; pfam13953 547048005711 Spore Coat Protein U domain; Region: SCPU; pfam05229 547048005712 Uncharacterized secreted protein [Function unknown]; Region: COG5430 547048005713 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 547048005714 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 547048005715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048005716 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048005717 DNA-binding interface [nucleotide binding]; DNA binding site 547048005718 Integrase core domain; Region: rve; pfam00665 547048005719 transposase/IS protein; Provisional; Region: PRK09183 547048005720 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005721 Walker A motif; other site 547048005722 ATP binding site [chemical binding]; other site 547048005723 Walker B motif; other site 547048005724 thymidine kinase; Provisional; Region: PRK04296 547048005725 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 547048005726 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 547048005727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048005728 active site 547048005729 response regulator of RpoS; Provisional; Region: PRK10693 547048005730 phosphorylation site [posttranslational modification] 547048005731 intermolecular recognition site; other site 547048005732 dimerization interface [polypeptide binding]; other site 547048005733 SEC-C motif; Region: SEC-C; pfam02810 547048005734 hypothetical protein; Provisional; Region: PRK04233 547048005735 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 547048005736 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 547048005737 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 547048005738 putative active site [active] 547048005739 putative substrate binding site [chemical binding]; other site 547048005740 putative cosubstrate binding site; other site 547048005741 catalytic site [active] 547048005742 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048005743 MULE transposase domain; Region: MULE; pfam10551 547048005744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048005745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048005746 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 547048005747 putative catalytic site [active] 547048005748 putative phosphate binding site [ion binding]; other site 547048005749 active site 547048005750 metal binding site A [ion binding]; metal-binding site 547048005751 DNA binding site [nucleotide binding] 547048005752 putative AP binding site [nucleotide binding]; other site 547048005753 putative metal binding site B [ion binding]; other site 547048005754 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 547048005755 active site 547048005756 8-oxo-dGMP binding site [chemical binding]; other site 547048005757 nudix motif; other site 547048005758 metal binding site [ion binding]; metal-binding site 547048005759 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 547048005760 DNA topoisomerase III; Provisional; Region: PRK07726 547048005761 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 547048005762 active site 547048005763 putative interdomain interaction site [polypeptide binding]; other site 547048005764 putative metal-binding site [ion binding]; other site 547048005765 putative nucleotide binding site [chemical binding]; other site 547048005766 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 547048005767 domain I; other site 547048005768 DNA binding groove [nucleotide binding] 547048005769 phosphate binding site [ion binding]; other site 547048005770 domain II; other site 547048005771 domain III; other site 547048005772 nucleotide binding site [chemical binding]; other site 547048005773 catalytic site [active] 547048005774 domain IV; other site 547048005775 selenophosphate synthetase; Provisional; Region: PRK00943 547048005776 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 547048005777 dimerization interface [polypeptide binding]; other site 547048005778 putative ATP binding site [chemical binding]; other site 547048005779 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 547048005780 putative FMN binding site [chemical binding]; other site 547048005781 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 547048005782 active site 547048005783 homodimer interface [polypeptide binding]; other site 547048005784 Isochorismatase family; Region: Isochorismatase; pfam00857 547048005785 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 547048005786 catalytic triad [active] 547048005787 metal binding site [ion binding]; metal-binding site 547048005788 conserved cis-peptide bond; other site 547048005789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 547048005790 methionine sulfoxide reductase B; Provisional; Region: PRK00222 547048005791 SelR domain; Region: SelR; pfam01641 547048005792 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 547048005793 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 547048005794 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 547048005795 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 547048005796 active site 547048005797 phosphate binding residues; other site 547048005798 catalytic residues [active] 547048005799 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 547048005800 PrkA family serine protein kinase; Provisional; Region: PRK15455 547048005801 AAA ATPase domain; Region: AAA_16; pfam13191 547048005802 Walker A motif; other site 547048005803 ATP binding site [chemical binding]; other site 547048005804 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 547048005805 hypothetical protein; Provisional; Region: PRK05325 547048005806 EamA-like transporter family; Region: EamA; pfam00892 547048005807 LysR family transcriptional regulator; Provisional; Region: PRK14997 547048005808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048005809 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 547048005810 putative effector binding pocket; other site 547048005811 putative dimerization interface [polypeptide binding]; other site 547048005812 Pirin-related protein [General function prediction only]; Region: COG1741 547048005813 Pirin; Region: Pirin; pfam02678 547048005814 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 547048005815 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005816 putative substrate translocation pore; other site 547048005817 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048005818 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 547048005819 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547048005820 hydroxyglutarate oxidase; Provisional; Region: PRK11728 547048005821 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 547048005822 SpoVR family protein; Provisional; Region: PRK11767 547048005823 fatty acid metabolism regulator; Provisional; Region: PRK04984 547048005824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048005825 DNA-binding site [nucleotide binding]; DNA binding site 547048005826 FadR C-terminal domain; Region: FadR_C; pfam07840 547048005827 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 547048005828 disulfide bond formation protein B; Provisional; Region: PRK01749 547048005829 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 547048005830 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 547048005831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048005832 catalytic residue [active] 547048005833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048005834 putative substrate translocation pore; other site 547048005835 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048005836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048005837 MULE transposase domain; Region: MULE; pfam10551 547048005838 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 547048005839 Phage-related protein, tail component [Function unknown]; Region: COG4733 547048005840 Putative phage tail protein; Region: Phage-tail_3; pfam13550 547048005841 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 547048005842 Interdomain contacts; other site 547048005843 Cytokine receptor motif; other site 547048005844 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 547048005845 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 547048005846 dimer interface [polypeptide binding]; other site 547048005847 substrate binding pocket (H-site) [chemical binding]; other site 547048005848 Phage-related protein, tail component [Function unknown]; Region: COG4723 547048005849 Double zinc ribbon; Region: DZR; pfam12773 547048005850 Prophage antirepressor [Transcription]; Region: COG3617 547048005851 BRO family, N-terminal domain; Region: Bro-N; smart01040 547048005852 Arc-like DNA binding domain; Region: Arc; pfam03869 547048005853 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cl02432 547048005854 ligand binding surface [chemical binding]; other site 547048005855 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 547048005856 MPN+ (JAMM) motif; other site 547048005857 Zinc-binding site [ion binding]; other site 547048005858 NlpC/P60 family; Region: NLPC_P60; pfam00877 547048005859 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 547048005860 Phage-related protein [Function unknown]; Region: gp18; COG4672 547048005861 Phage-related protein [Function unknown]; Region: COG4718 547048005862 Phage-related minor tail protein [Function unknown]; Region: COG5281 547048005863 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 547048005864 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 547048005865 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 547048005866 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 547048005867 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 547048005868 Phage tail protein; Region: Phage_tail_3; pfam08813 547048005869 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 547048005870 O-sialoglycoprotein endopeptidase-like protein; Provisional; Region: PTZ00340 547048005871 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 547048005872 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 547048005873 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 547048005874 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 547048005875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048005876 MULE transposase domain; Region: MULE; pfam10551 547048005877 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 547048005878 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3645 547048005879 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 547048005880 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 547048005881 catalytic residues [active] 547048005882 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 547048005883 Prophage antirepressor [Transcription]; Region: COG3617 547048005884 BRO family, N-terminal domain; Region: Bro-N; smart01040 547048005885 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 547048005886 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 547048005887 NinB protein; Region: NinB; pfam05772 547048005888 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 547048005889 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 547048005890 transposase/IS protein; Provisional; Region: PRK09183 547048005891 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005892 Walker A motif; other site 547048005893 ATP binding site [chemical binding]; other site 547048005894 Walker B motif; other site 547048005895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048005896 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048005897 DNA-binding interface [nucleotide binding]; DNA binding site 547048005898 Integrase core domain; Region: rve; pfam00665 547048005899 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 547048005900 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 547048005901 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 547048005902 Int/Topo IB signature motif; other site 547048005903 hypothetical protein; Provisional; Region: PRK05170 547048005904 hypothetical protein; Provisional; Region: PRK10691 547048005905 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 547048005906 potential frameshift: common BLAST hit: gi|218929188|ref|YP_002347063.1| lipoprotein 547048005907 lytic murein transglycosylase; Region: MltB_2; TIGR02283 547048005908 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048005909 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048005910 catalytic residue [active] 547048005911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 547048005912 septum formation inhibitor; Reviewed; Region: minC; PRK03511 547048005913 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 547048005914 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 547048005915 cell division inhibitor MinD; Provisional; Region: PRK10818 547048005916 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 547048005917 Switch I; other site 547048005918 Switch II; other site 547048005919 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 547048005920 ribonuclease D; Provisional; Region: PRK10829 547048005921 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 547048005922 catalytic site [active] 547048005923 putative active site [active] 547048005924 putative substrate binding site [chemical binding]; other site 547048005925 HRDC domain; Region: HRDC; pfam00570 547048005926 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 547048005927 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 547048005928 acyl-activating enzyme (AAE) consensus motif; other site 547048005929 putative AMP binding site [chemical binding]; other site 547048005930 putative active site [active] 547048005931 putative CoA binding site [chemical binding]; other site 547048005932 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048005933 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 547048005934 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 547048005935 Glycoprotease family; Region: Peptidase_M22; pfam00814 547048005936 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 547048005937 DEAD/DEAH box helicase; Region: DEAD; pfam00270 547048005938 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 547048005939 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 547048005940 homotrimer interaction site [polypeptide binding]; other site 547048005941 putative active site [active] 547048005942 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 547048005943 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 547048005944 active site 547048005945 intersubunit interface [polypeptide binding]; other site 547048005946 catalytic residue [active] 547048005947 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 547048005948 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 547048005949 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 547048005950 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 547048005951 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048005952 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048005953 putative active site [active] 547048005954 pyruvate kinase; Provisional; Region: PRK05826 547048005955 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 547048005956 domain interfaces; other site 547048005957 active site 547048005958 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048005959 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 547048005960 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 547048005961 putative acyl-acceptor binding pocket; other site 547048005962 putative peptidase; Provisional; Region: PRK11649 547048005963 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 547048005964 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048005965 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048005966 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 547048005967 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 547048005968 metal binding site [ion binding]; metal-binding site 547048005969 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 547048005970 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 547048005971 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 547048005972 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048005973 ABC-ATPase subunit interface; other site 547048005974 dimer interface [polypeptide binding]; other site 547048005975 putative PBP binding regions; other site 547048005976 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 547048005977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048005978 Walker A motif; other site 547048005979 ATP binding site [chemical binding]; other site 547048005980 Walker B motif; other site 547048005981 arginine finger; other site 547048005982 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 547048005983 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 547048005984 RuvA N terminal domain; Region: RuvA_N; pfam01330 547048005985 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 547048005986 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 547048005987 active site 547048005988 putative DNA-binding cleft [nucleotide binding]; other site 547048005989 dimer interface [polypeptide binding]; other site 547048005990 hypothetical protein; Validated; Region: PRK00110 547048005991 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 547048005992 nudix motif; other site 547048005993 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 547048005994 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 547048005995 dimer interface [polypeptide binding]; other site 547048005996 anticodon binding site; other site 547048005997 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 547048005998 homodimer interface [polypeptide binding]; other site 547048005999 motif 1; other site 547048006000 active site 547048006001 motif 2; other site 547048006002 GAD domain; Region: GAD; pfam02938 547048006003 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 547048006004 active site 547048006005 motif 3; other site 547048006006 hypothetical protein; Provisional; Region: PRK10302 547048006007 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 547048006008 copper homeostasis protein CutC; Provisional; Region: PRK11572 547048006009 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 547048006010 putative metal binding site [ion binding]; other site 547048006011 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 547048006012 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 547048006013 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 547048006014 active site 547048006015 HIGH motif; other site 547048006016 KMSK motif region; other site 547048006017 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 547048006018 tRNA binding surface [nucleotide binding]; other site 547048006019 anticodon binding site; other site 547048006020 haemagglutination activity domain; Region: Haemagg_act; smart00912 547048006021 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048006022 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048006023 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048006024 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048006025 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048006026 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 547048006027 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 547048006028 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 547048006029 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 547048006030 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 547048006031 potential frameshift: common BLAST hit: gi|294503892|ref|YP_003567954.1| putative oxidoreductase 547048006032 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547048006033 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048006034 hypothetical protein; Provisional; Region: PRK11239 547048006035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 547048006036 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 547048006037 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 547048006038 multidrug resistance protein MdtH; Provisional; Region: PRK11646 547048006039 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006040 putative substrate translocation pore; other site 547048006041 lipoprotein; Provisional; Region: PRK10598 547048006042 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 547048006043 putative hydrolase; Validated; Region: PRK09248 547048006044 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 547048006045 active site 547048006046 Transcriptional regulators [Transcription]; Region: MarR; COG1846 547048006047 MarR family; Region: MarR_2; pfam12802 547048006048 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 547048006049 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048006050 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 547048006051 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 547048006052 active site 547048006053 catalytic site [active] 547048006054 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 547048006055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048006056 Walker A/P-loop; other site 547048006057 ATP binding site [chemical binding]; other site 547048006058 Q-loop/lid; other site 547048006059 ABC transporter signature motif; other site 547048006060 Walker B; other site 547048006061 D-loop; other site 547048006062 H-loop/switch region; other site 547048006063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048006064 dimer interface [polypeptide binding]; other site 547048006065 conserved gate region; other site 547048006066 putative PBP binding loops; other site 547048006067 ABC-ATPase subunit interface; other site 547048006068 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 547048006069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048006070 dimer interface [polypeptide binding]; other site 547048006071 conserved gate region; other site 547048006072 putative PBP binding loops; other site 547048006073 ABC-ATPase subunit interface; other site 547048006074 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 547048006075 hypothetical protein; Provisional; Region: PRK11622 547048006076 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 547048006077 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 547048006078 putative active site [active] 547048006079 catalytic site [active] 547048006080 putative metal binding site [ion binding]; other site 547048006081 putative transporter; Provisional; Region: PRK11660 547048006082 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 547048006083 Sulfate transporter family; Region: Sulfate_transp; pfam00916 547048006084 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 547048006085 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048006086 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 547048006087 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 547048006088 hypothetical protein; Provisional; Region: PRK10941 547048006089 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 547048006090 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547048006091 binding surface 547048006092 TPR motif; other site 547048006093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3094 547048006094 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 547048006095 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547048006096 peptide chain release factor 1; Validated; Region: prfA; PRK00591 547048006097 This domain is found in peptide chain release factors; Region: PCRF; smart00937 547048006098 RF-1 domain; Region: RF-1; pfam00472 547048006099 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 547048006100 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 547048006101 tRNA; other site 547048006102 putative tRNA binding site [nucleotide binding]; other site 547048006103 putative NADP binding site [chemical binding]; other site 547048006104 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 547048006105 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 547048006106 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 547048006107 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 547048006108 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 547048006109 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 547048006110 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 547048006111 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 547048006112 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048006113 active site 547048006114 hypothetical protein; Provisional; Region: PRK10692 547048006115 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 547048006116 putative active site [active] 547048006117 catalytic residue [active] 547048006118 GTP-binding protein YchF; Reviewed; Region: PRK09601 547048006119 YchF GTPase; Region: YchF; cd01900 547048006120 G1 box; other site 547048006121 GTP/Mg2+ binding site [chemical binding]; other site 547048006122 Switch I region; other site 547048006123 G2 box; other site 547048006124 Switch II region; other site 547048006125 G3 box; other site 547048006126 G4 box; other site 547048006127 G5 box; other site 547048006128 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 547048006129 Integrase core domain; Region: rve; pfam00665 547048006130 Integrase core domain; Region: rve_3; pfam13683 547048006131 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 547048006132 active site residue [active] 547048006133 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 547048006134 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 547048006135 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 547048006136 flavodoxin; Provisional; Region: PRK06934 547048006137 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 547048006138 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 547048006139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048006140 active site 547048006141 phosphorylation site [posttranslational modification] 547048006142 intermolecular recognition site; other site 547048006143 dimerization interface [polypeptide binding]; other site 547048006144 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048006145 DNA binding site [nucleotide binding] 547048006146 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 547048006147 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048006148 dimerization interface [polypeptide binding]; other site 547048006149 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048006150 dimer interface [polypeptide binding]; other site 547048006151 phosphorylation site [posttranslational modification] 547048006152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048006153 ATP binding site [chemical binding]; other site 547048006154 Mg2+ binding site [ion binding]; other site 547048006155 G-X-G motif; other site 547048006156 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 547048006157 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 547048006158 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 547048006159 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 547048006160 catalytic site [active] 547048006161 HEAT repeats; Region: HEAT_2; pfam13646 547048006162 classical (c) SDRs; Region: SDR_c; cd05233 547048006163 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 547048006164 NAD(P) binding site [chemical binding]; other site 547048006165 active site 547048006166 Methyltransferase domain; Region: Methyltransf_12; pfam08242 547048006167 hypothetical protein; Provisional; Region: PRK09273 547048006168 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 547048006169 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 547048006170 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 547048006171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 547048006172 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 547048006173 Sel1-like repeats; Region: SEL1; smart00671 547048006174 Sel1-like repeats; Region: SEL1; smart00671 547048006175 Sel1-like repeats; Region: SEL1; smart00671 547048006176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006177 MULE transposase domain; Region: MULE; pfam10551 547048006178 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 547048006179 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 547048006180 active site 547048006181 TDP-binding site; other site 547048006182 acceptor substrate-binding pocket; other site 547048006183 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 547048006184 active site 547048006185 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 547048006186 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547048006187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048006188 NAD(P) binding site [chemical binding]; other site 547048006189 active site 547048006190 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 547048006191 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 547048006192 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 547048006193 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547048006194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048006195 NAD(P) binding site [chemical binding]; other site 547048006196 active site 547048006197 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 547048006198 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 547048006199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 547048006200 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 547048006201 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 547048006202 active site 547048006203 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 547048006204 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048006205 DNA-binding site [nucleotide binding]; DNA binding site 547048006206 UTRA domain; Region: UTRA; pfam07702 547048006207 imidazolonepropionase; Validated; Region: PRK09356 547048006208 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 547048006209 active site 547048006210 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 547048006211 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 547048006212 transposase/IS protein; Provisional; Region: PRK09183 547048006213 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048006214 Walker A motif; other site 547048006215 ATP binding site [chemical binding]; other site 547048006216 Walker B motif; other site 547048006217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048006218 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048006219 DNA-binding interface [nucleotide binding]; DNA binding site 547048006220 Integrase core domain; Region: rve; pfam00665 547048006221 TOBE domain; Region: TOBE_2; pfam08402 547048006222 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 547048006223 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048006224 Walker A/P-loop; other site 547048006225 ATP binding site [chemical binding]; other site 547048006226 Q-loop/lid; other site 547048006227 ABC transporter signature motif; other site 547048006228 Walker B; other site 547048006229 D-loop; other site 547048006230 H-loop/switch region; other site 547048006231 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048006232 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048006233 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547048006234 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048006235 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 547048006236 N-acetylmannosamine kinase; Provisional; Region: PRK05082 547048006237 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 547048006238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048006239 DNA-binding site [nucleotide binding]; DNA binding site 547048006240 UTRA domain; Region: UTRA; pfam07702 547048006241 Integrase core domain; Region: rve_3; cl15866 547048006242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006244 MULE transposase domain; Region: MULE; pfam10551 547048006245 TIR domain; Region: TIR_2; pfam13676 547048006246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 547048006247 Protein of unknown function (DUF497); Region: DUF497; pfam04365 547048006248 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 547048006249 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 547048006250 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 547048006251 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 547048006252 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 547048006253 Transposase; Region: HTH_Tnp_1; cl17663 547048006254 Homeodomain-like domain; Region: HTH_32; pfam13565 547048006255 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 547048006256 Integrase core domain; Region: rve; pfam00665 547048006257 Integrase core domain; Region: rve_3; pfam13683 547048006258 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 547048006259 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 547048006260 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 547048006261 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048006262 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048006263 DNA binding site [nucleotide binding] 547048006264 active site 547048006265 Int/Topo IB signature motif; other site 547048006266 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 547048006267 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 547048006268 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 547048006269 GIY-YIG motif/motif A; other site 547048006270 active site 547048006271 catalytic site [active] 547048006272 putative DNA binding site [nucleotide binding]; other site 547048006273 metal binding site [ion binding]; metal-binding site 547048006274 UvrB/uvrC motif; Region: UVR; pfam02151 547048006275 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 547048006276 Helix-hairpin-helix motif; Region: HHH; pfam00633 547048006277 response regulator; Provisional; Region: PRK09483 547048006278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048006279 active site 547048006280 phosphorylation site [posttranslational modification] 547048006281 intermolecular recognition site; other site 547048006282 dimerization interface [polypeptide binding]; other site 547048006283 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048006284 DNA binding residues [nucleotide binding] 547048006285 dimerization interface [polypeptide binding]; other site 547048006286 hypothetical protein; Provisional; Region: PRK10613 547048006287 GlpM protein; Region: GlpM; pfam06942 547048006288 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 547048006289 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 547048006290 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 547048006291 Kelch motif; Region: Kelch_1; pfam01344 547048006292 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 547048006293 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 547048006294 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 547048006295 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 547048006296 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 547048006297 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 547048006298 Imelysin; Region: Peptidase_M75; pfam09375 547048006299 Iron permease FTR1 family; Region: FTR1; cl00475 547048006300 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 547048006301 Na binding site [ion binding]; other site 547048006302 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 547048006303 Predicted transcriptional regulator [Transcription]; Region: COG3905 547048006304 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 547048006305 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 547048006306 Glutamate binding site [chemical binding]; other site 547048006307 NAD binding site [chemical binding]; other site 547048006308 catalytic residues [active] 547048006309 MarR family; Region: MarR_2; cl17246 547048006310 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048006311 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 547048006312 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 547048006313 Walker A/P-loop; other site 547048006314 ATP binding site [chemical binding]; other site 547048006315 Q-loop/lid; other site 547048006316 ABC transporter signature motif; other site 547048006317 Walker B; other site 547048006318 D-loop; other site 547048006319 H-loop/switch region; other site 547048006320 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048006321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048006322 dimer interface [polypeptide binding]; other site 547048006323 conserved gate region; other site 547048006324 putative PBP binding loops; other site 547048006325 ABC-ATPase subunit interface; other site 547048006326 cystine transporter subunit; Provisional; Region: PRK11260 547048006327 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048006328 substrate binding pocket [chemical binding]; other site 547048006329 membrane-bound complex binding site; other site 547048006330 hinge residues; other site 547048006331 D-cysteine desulfhydrase; Validated; Region: PRK03910 547048006332 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 547048006333 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048006334 catalytic residue [active] 547048006335 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 547048006336 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 547048006337 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547048006338 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 547048006339 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 547048006340 DNA binding residues [nucleotide binding] 547048006341 flagellin; Validated; Region: PRK06819 547048006342 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547048006343 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 547048006344 flagellar capping protein; Reviewed; Region: fliD; PRK08032 547048006345 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 547048006346 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 547048006347 flagellar protein FliS; Validated; Region: fliS; PRK05685 547048006348 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 547048006349 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 547048006350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048006351 potential frameshift: common BLAST hit: gi|186895149|ref|YP_001872261.1| metal dependent phosphohydrolase 547048006352 two-component sensor protein; Provisional; Region: cpxA; PRK09470 547048006353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547048006354 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 547048006355 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 547048006356 minor groove reading motif; other site 547048006357 helix-hairpin-helix signature motif; other site 547048006358 active site 547048006359 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 547048006360 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 547048006361 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 547048006362 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 547048006363 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 547048006364 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 547048006365 FliG C-terminal domain; Region: FliG_C; pfam01706 547048006366 flagellar assembly protein H; Validated; Region: fliH; PRK05687 547048006367 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 547048006368 Flagellar assembly protein FliH; Region: FliH; pfam02108 547048006369 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 547048006370 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 547048006371 Walker A motif/ATP binding site; other site 547048006372 Walker B motif; other site 547048006373 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 547048006374 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 547048006375 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 547048006376 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 547048006377 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 547048006378 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 547048006379 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 547048006380 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 547048006381 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 547048006382 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 547048006383 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 547048006384 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 547048006385 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 547048006386 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 547048006387 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 547048006388 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048006389 substrate binding site [chemical binding]; other site 547048006390 ATP binding site [chemical binding]; other site 547048006391 potential frameshift: common BLAST hit: gi|294504017|ref|YP_003568079.1| ABC transporter permease 547048006392 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048006393 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048006394 TM-ABC transporter signature motif; other site 547048006395 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048006396 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048006397 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048006398 Walker A/P-loop; other site 547048006399 ATP binding site [chemical binding]; other site 547048006400 Q-loop/lid; other site 547048006401 ABC transporter signature motif; other site 547048006402 Walker B; other site 547048006403 D-loop; other site 547048006404 H-loop/switch region; other site 547048006405 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048006406 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 547048006407 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 547048006408 ligand binding site [chemical binding]; other site 547048006409 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048006410 TM-ABC transporter signature motif; other site 547048006411 short chain dehydrogenase; Validated; Region: PRK08324 547048006412 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 547048006413 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 547048006414 putative NAD(P) binding site [chemical binding]; other site 547048006415 active site 547048006416 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 547048006417 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 547048006418 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 547048006419 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 547048006420 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547048006421 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 547048006422 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 547048006423 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 547048006424 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 547048006425 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 547048006426 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 547048006427 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 547048006428 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 547048006429 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 547048006430 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048006431 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12643 547048006432 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048006433 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 547048006434 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 547048006435 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048006436 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 547048006437 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048006438 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 547048006439 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 547048006440 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 547048006441 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 547048006442 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048006443 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048006444 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 547048006445 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 547048006446 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 547048006447 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 547048006448 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 547048006449 Flagellar biosynthesis/type III secretory pathway chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3418 547048006450 Flagellar protein FlhE; Region: FlhE; pfam06366 547048006451 potential frameshift: common BLAST hit: gi|294504041|ref|YP_003568103.1| flagellar biosynthesis protein 547048006452 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 547048006453 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 547048006454 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 547048006455 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 547048006456 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 547048006457 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 547048006458 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 547048006459 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 547048006460 Ferritin-like domain; Region: Ferritin; pfam00210 547048006461 ferroxidase diiron center [ion binding]; other site 547048006462 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 547048006463 potential frameshift: common BLAST hit: gi|294504048|ref|YP_003568110.1| proline iminopeptidase 547048006464 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 547048006465 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 547048006466 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 547048006467 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 547048006468 hypothetical protein; Provisional; Region: PRK13680 547048006469 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 547048006470 YebG protein; Region: YebG; pfam07130 547048006471 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 547048006472 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547048006473 ATP binding site [chemical binding]; other site 547048006474 Mg++ binding site [ion binding]; other site 547048006475 motif III; other site 547048006476 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048006477 nucleotide binding region [chemical binding]; other site 547048006478 ATP-binding site [chemical binding]; other site 547048006479 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 547048006480 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 547048006481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048006482 ATP-grasp domain; Region: ATP-grasp; pfam02222 547048006483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3140 547048006484 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 547048006485 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 547048006486 chorismate binding enzyme; Region: Chorismate_bind; cl10555 547048006487 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 547048006488 putative active site [active] 547048006489 putative CoA binding site [chemical binding]; other site 547048006490 nudix motif; other site 547048006491 metal binding site [ion binding]; metal-binding site 547048006492 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 547048006493 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 547048006494 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 547048006495 4-hydroxyphenylacetate 3-monooxygenase, reductase component; Region: HpaC; TIGR02296 547048006496 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 547048006497 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 547048006498 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 547048006499 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 547048006500 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 547048006501 trimer interface [polypeptide binding]; other site 547048006502 putative substrate binding pocket [chemical binding]; other site 547048006503 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 547048006504 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 547048006505 putative active site [active] 547048006506 putative metal binding site [ion binding]; other site 547048006507 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 547048006508 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 547048006509 NAD binding site [chemical binding]; other site 547048006510 catalytic residues [active] 547048006511 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 547048006512 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 547048006513 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 547048006514 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 547048006515 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 547048006516 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 547048006517 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 547048006518 Transporter associated domain; Region: CorC_HlyC; smart01091 547048006519 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 547048006520 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 547048006521 active pocket/dimerization site; other site 547048006522 active site 547048006523 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 547048006524 active site 547048006525 phosphorylation site [posttranslational modification] 547048006526 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 547048006527 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 547048006528 hypothetical protein; Provisional; Region: PRK02913 547048006529 hypothetical protein; Provisional; Region: PRK11469 547048006530 Domain of unknown function DUF; Region: DUF204; pfam02659 547048006531 Domain of unknown function DUF; Region: DUF204; pfam02659 547048006532 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 547048006533 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048006534 N-terminal plug; other site 547048006535 ligand-binding site [chemical binding]; other site 547048006536 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048006537 PAS domain; Region: PAS_9; pfam13426 547048006538 putative active site [active] 547048006539 heme pocket [chemical binding]; other site 547048006540 PAS domain S-box; Region: sensory_box; TIGR00229 547048006541 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048006542 putative active site [active] 547048006543 heme pocket [chemical binding]; other site 547048006544 PAS fold; Region: PAS; pfam00989 547048006545 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048006546 putative active site [active] 547048006547 heme pocket [chemical binding]; other site 547048006548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547048006549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048006550 metal binding site [ion binding]; metal-binding site 547048006551 active site 547048006552 I-site; other site 547048006553 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 547048006554 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048006555 S-adenosylmethionine binding site [chemical binding]; other site 547048006556 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 547048006557 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 547048006558 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048006559 DNA-binding site [nucleotide binding]; DNA binding site 547048006560 RNA-binding motif; other site 547048006561 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 547048006562 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 547048006563 aromatic amino acid transporter; Provisional; Region: PRK10238 547048006564 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 547048006565 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 547048006566 YebO-like protein; Region: YebO; pfam13974 547048006567 YobH-like protein; Region: YobH; pfam13996 547048006568 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 547048006569 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 547048006570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048006571 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 547048006572 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048006573 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 547048006574 Walker A/P-loop; other site 547048006575 ATP binding site [chemical binding]; other site 547048006576 Q-loop/lid; other site 547048006577 ABC transporter signature motif; other site 547048006578 Walker B; other site 547048006579 D-loop; other site 547048006580 H-loop/switch region; other site 547048006581 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 547048006582 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 547048006583 ATP binding site [chemical binding]; other site 547048006584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 547048006585 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 547048006586 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 547048006587 transposase/IS protein; Provisional; Region: PRK09183 547048006588 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048006589 Walker A motif; other site 547048006590 ATP binding site [chemical binding]; other site 547048006591 Walker B motif; other site 547048006592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048006593 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048006594 DNA-binding interface [nucleotide binding]; DNA binding site 547048006595 Integrase core domain; Region: rve; pfam00665 547048006596 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048006597 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048006598 DNA binding site [nucleotide binding] 547048006599 domain linker motif; other site 547048006600 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 547048006601 ligand binding site [chemical binding]; other site 547048006602 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006603 MULE transposase domain; Region: MULE; pfam10551 547048006604 galactoside permease; Reviewed; Region: lacY; PRK09528 547048006605 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006606 putative substrate translocation pore; other site 547048006607 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 547048006608 Melibiase; Region: Melibiase; pfam02065 547048006609 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 547048006610 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 547048006611 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 547048006612 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 547048006613 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 547048006614 DctM-like transporters; Region: DctM; pfam06808 547048006615 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 547048006616 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 547048006617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048006618 active site 547048006619 phosphorylation site [posttranslational modification] 547048006620 intermolecular recognition site; other site 547048006621 dimerization interface [polypeptide binding]; other site 547048006622 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048006623 DNA binding residues [nucleotide binding] 547048006624 dimerization interface [polypeptide binding]; other site 547048006625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 547048006626 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006627 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048006628 putative substrate translocation pore; other site 547048006629 MATE family multidrug exporter; Provisional; Region: PRK10189 547048006630 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 547048006631 argininosuccinate synthase; Validated; Region: PRK05370 547048006632 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 547048006633 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 547048006634 phosphate binding site [ion binding]; other site 547048006635 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 547048006636 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 547048006637 putative active site pocket [active] 547048006638 metal binding site [ion binding]; metal-binding site 547048006639 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 547048006640 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 547048006641 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 547048006642 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 547048006643 NAD binding site [chemical binding]; other site 547048006644 homotetramer interface [polypeptide binding]; other site 547048006645 homodimer interface [polypeptide binding]; other site 547048006646 active site 547048006647 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 547048006648 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 547048006649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006650 putative substrate translocation pore; other site 547048006651 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 547048006652 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 547048006653 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 547048006654 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 547048006655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006656 MULE transposase domain; Region: MULE; pfam10551 547048006657 hypothetical protein; Provisional; Region: PRK05423 547048006658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048006659 NAD(P) binding site [chemical binding]; other site 547048006660 active site 547048006661 exonuclease I; Provisional; Region: sbcB; PRK11779 547048006662 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 547048006663 active site 547048006664 catalytic site [active] 547048006665 substrate binding site [chemical binding]; other site 547048006666 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 547048006667 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 547048006668 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 547048006669 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 547048006670 putative active site [active] 547048006671 metal binding site [ion binding]; metal-binding site 547048006672 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 547048006673 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048006674 Walker A/P-loop; other site 547048006675 ATP binding site [chemical binding]; other site 547048006676 Q-loop/lid; other site 547048006677 ABC transporter signature motif; other site 547048006678 Walker B; other site 547048006679 D-loop; other site 547048006680 H-loop/switch region; other site 547048006681 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048006682 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 547048006683 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048006684 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048006685 TM-ABC transporter signature motif; other site 547048006686 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048006687 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547048006688 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 547048006689 putative NAD(P) binding site [chemical binding]; other site 547048006690 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 547048006691 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 547048006692 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 547048006693 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 547048006694 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 547048006695 NAD binding site [chemical binding]; other site 547048006696 dimerization interface [polypeptide binding]; other site 547048006697 product binding site; other site 547048006698 substrate binding site [chemical binding]; other site 547048006699 zinc binding site [ion binding]; other site 547048006700 catalytic residues [active] 547048006701 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 547048006702 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048006703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048006704 homodimer interface [polypeptide binding]; other site 547048006705 catalytic residue [active] 547048006706 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 547048006707 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048006708 active site 547048006709 motif I; other site 547048006710 motif II; other site 547048006711 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 547048006712 putative active site pocket [active] 547048006713 4-fold oligomerization interface [polypeptide binding]; other site 547048006714 metal binding residues [ion binding]; metal-binding site 547048006715 3-fold/trimer interface [polypeptide binding]; other site 547048006716 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 547048006717 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 547048006718 putative active site [active] 547048006719 oxyanion strand; other site 547048006720 catalytic triad [active] 547048006721 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 547048006722 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 547048006723 catalytic residues [active] 547048006724 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 547048006725 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 547048006726 substrate binding site [chemical binding]; other site 547048006727 glutamase interaction surface [polypeptide binding]; other site 547048006728 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 547048006729 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 547048006730 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 547048006731 metal binding site [ion binding]; metal-binding site 547048006732 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 547048006733 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 547048006734 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 547048006735 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 547048006736 active site 547048006737 tetramer interface; other site 547048006738 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 547048006739 active site 547048006740 tetramer interface; other site 547048006741 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 547048006742 IucA / IucC family; Region: IucA_IucC; pfam04183 547048006743 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 547048006744 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 547048006745 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048006746 N-terminal plug; other site 547048006747 ligand-binding site [chemical binding]; other site 547048006748 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 547048006749 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 547048006750 siderophore binding site; other site 547048006751 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 547048006752 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048006753 ABC-ATPase subunit interface; other site 547048006754 dimer interface [polypeptide binding]; other site 547048006755 putative PBP binding regions; other site 547048006756 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 547048006757 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048006758 Walker A/P-loop; other site 547048006759 ATP binding site [chemical binding]; other site 547048006760 Q-loop/lid; other site 547048006761 ABC transporter signature motif; other site 547048006762 Walker B; other site 547048006763 D-loop; other site 547048006764 H-loop/switch region; other site 547048006765 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 547048006766 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 547048006767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048006768 catalytic residue [active] 547048006769 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 547048006770 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 547048006771 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 547048006772 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 547048006773 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 547048006774 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 547048006775 Transporter associated domain; Region: CorC_HlyC; smart01091 547048006776 putative assembly protein; Provisional; Region: PRK10833 547048006777 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 547048006778 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 547048006779 trimer interface [polypeptide binding]; other site 547048006780 active site 547048006781 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 547048006782 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 547048006783 ATP-binding site [chemical binding]; other site 547048006784 Sugar specificity; other site 547048006785 Pyrimidine base specificity; other site 547048006786 antiporter inner membrane protein; Provisional; Region: PRK11670 547048006787 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 547048006788 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 547048006789 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 547048006790 active site 547048006791 HIGH motif; other site 547048006792 KMSKS motif; other site 547048006793 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 547048006794 tRNA binding surface [nucleotide binding]; other site 547048006795 anticodon binding site; other site 547048006796 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 547048006797 dimer interface [polypeptide binding]; other site 547048006798 putative tRNA-binding site [nucleotide binding]; other site 547048006799 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048006800 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048006801 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 547048006802 putative ligand binding site [chemical binding]; other site 547048006803 Uncharacterized conserved protein [Function unknown]; Region: COG5276 547048006804 Uncharacterized conserved protein [Function unknown]; Region: COG5276 547048006805 putative transporter; Provisional; Region: PRK10054 547048006806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006807 putative substrate translocation pore; other site 547048006808 hypothetical protein; Provisional; Region: PRK01821 547048006809 hypothetical protein; Provisional; Region: PRK10711 547048006810 cytidine deaminase; Provisional; Region: PRK09027 547048006811 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 547048006812 active site 547048006813 catalytic motif [active] 547048006814 Zn binding site [ion binding]; other site 547048006815 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 547048006816 active site 547048006817 catalytic motif [active] 547048006818 Zn binding site [ion binding]; other site 547048006819 malate dehydrogenase; Provisional; Region: PRK13529 547048006820 Malic enzyme, N-terminal domain; Region: malic; pfam00390 547048006821 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 547048006822 NAD(P) binding site [chemical binding]; other site 547048006823 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 547048006824 putative active site [active] 547048006825 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048006826 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048006827 TM-ABC transporter signature motif; other site 547048006828 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048006829 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 547048006830 Walker A/P-loop; other site 547048006831 ATP binding site [chemical binding]; other site 547048006832 Q-loop/lid; other site 547048006833 ABC transporter signature motif; other site 547048006834 Walker B; other site 547048006835 D-loop; other site 547048006836 H-loop/switch region; other site 547048006837 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048006838 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 547048006839 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 547048006840 ligand binding site [chemical binding]; other site 547048006841 calcium binding site [ion binding]; other site 547048006842 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 547048006843 Predicted membrane protein [Function unknown]; Region: COG2311 547048006844 hypothetical protein; Provisional; Region: PRK10835 547048006845 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 547048006846 GTP cyclohydrolase I; Provisional; Region: PLN03044 547048006847 active site 547048006848 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048006849 putative substrate translocation pore; other site 547048006850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048006851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048006852 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 547048006853 putative dimerization interface [polypeptide binding]; other site 547048006854 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 547048006855 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 547048006856 substrate binding site [chemical binding]; other site 547048006857 catalytic Zn binding site [ion binding]; other site 547048006858 NAD binding site [chemical binding]; other site 547048006859 structural Zn binding site [ion binding]; other site 547048006860 dimer interface [polypeptide binding]; other site 547048006861 S-formylglutathione hydrolase; Region: PLN02442 547048006862 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 547048006863 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547048006864 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048006865 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 547048006866 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547048006867 Walker A/P-loop; other site 547048006868 ATP binding site [chemical binding]; other site 547048006869 Q-loop/lid; other site 547048006870 ABC transporter signature motif; other site 547048006871 Walker B; other site 547048006872 D-loop; other site 547048006873 H-loop/switch region; other site 547048006874 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048006875 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 547048006876 FeS/SAM binding site; other site 547048006877 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 547048006878 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 547048006879 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 547048006880 dimer interface [polypeptide binding]; other site 547048006881 putative functional site; other site 547048006882 putative MPT binding site; other site 547048006883 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 547048006884 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 547048006885 ATP binding site [chemical binding]; other site 547048006886 substrate interface [chemical binding]; other site 547048006887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048006888 MULE transposase domain; Region: MULE; pfam10551 547048006889 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 547048006890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048006891 Walker A/P-loop; other site 547048006892 ATP binding site [chemical binding]; other site 547048006893 Q-loop/lid; other site 547048006894 ABC transporter signature motif; other site 547048006895 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048006896 Walker B; other site 547048006897 D-loop; other site 547048006898 H-loop/switch region; other site 547048006899 ABC transporter; Region: ABC_tran_2; pfam12848 547048006900 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048006901 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 547048006902 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048006903 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048006904 ImpA domain protein; Region: DUF3702; pfam12486 547048006905 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 547048006906 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 547048006907 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 547048006908 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 547048006909 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 547048006910 PAAR motif; Region: PAAR_motif; pfam05488 547048006911 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048006912 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048006913 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 547048006914 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 547048006915 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 547048006916 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 547048006917 Winged helix-turn helix; Region: HTH_33; pfam13592 547048006918 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048006919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 547048006920 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048006921 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 547048006922 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048006923 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048006924 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 547048006925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 547048006926 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 547048006927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048006928 Walker A motif; other site 547048006929 ATP binding site [chemical binding]; other site 547048006930 Walker B motif; other site 547048006931 arginine finger; other site 547048006932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048006933 Walker A motif; other site 547048006934 ATP binding site [chemical binding]; other site 547048006935 Walker B motif; other site 547048006936 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 547048006937 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 547048006938 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 547048006939 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048006940 ligand binding site [chemical binding]; other site 547048006941 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 547048006942 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 547048006943 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 547048006944 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 547048006945 Protein of unknown function (DUF877); Region: DUF877; pfam05943 547048006946 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 547048006947 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 547048006948 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 547048006949 acyl carrier protein; Validated; Region: PRK07117 547048006950 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 547048006951 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 547048006952 classical (c) SDRs; Region: SDR_c; cd05233 547048006953 NAD(P) binding site [chemical binding]; other site 547048006954 active site 547048006955 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 547048006956 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 547048006957 dimer interface [polypeptide binding]; other site 547048006958 active site 547048006959 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 547048006960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048006961 NAD(P) binding site [chemical binding]; other site 547048006962 active site 547048006963 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 547048006964 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 547048006965 dimer interface [polypeptide binding]; other site 547048006966 active site 547048006967 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 547048006968 active site 2 [active] 547048006969 dimer interface [polypeptide binding]; other site 547048006970 active site 1 [active] 547048006971 short chain dehydrogenase; Provisional; Region: PRK06172 547048006972 classical (c) SDRs; Region: SDR_c; cd05233 547048006973 NAD(P) binding site [chemical binding]; other site 547048006974 active site 547048006975 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 547048006976 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 547048006977 FAD binding domain; Region: FAD_binding_4; pfam01565 547048006978 potential frameshift: common BLAST hit: gi|170024840|ref|YP_001721345.1| cytotoxic necrotizing factor 547048006979 Integrase core domain; Region: rve; pfam00665 547048006980 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 547048006981 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 547048006982 acylphosphatase; Provisional; Region: PRK14426 547048006983 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 547048006984 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 547048006985 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 547048006986 putative RNA binding site [nucleotide binding]; other site 547048006987 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048006988 S-adenosylmethionine binding site [chemical binding]; other site 547048006989 heat shock protein HspQ; Provisional; Region: PRK14129 547048006990 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 547048006991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 547048006992 hypothetical protein; Provisional; Region: PRK03641 547048006993 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 547048006994 active site 547048006995 dimer interfaces [polypeptide binding]; other site 547048006996 catalytic residues [active] 547048006997 DNA helicase IV; Provisional; Region: helD; PRK11054 547048006998 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 547048006999 Part of AAA domain; Region: AAA_19; pfam13245 547048007000 Family description; Region: UvrD_C_2; pfam13538 547048007001 Predicted membrane protein [Function unknown]; Region: COG3304 547048007002 Domain of unknown function (DUF307); Region: DUF307; pfam03733 547048007003 TIGR01666 family membrane protein; Region: YCCS 547048007004 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 547048007005 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 547048007006 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 547048007007 TfoX C-terminal domain; Region: TfoX_C; pfam04994 547048007008 SOS-response cell division inhibitor, blocks FtsZ ring formation [Cell division and chromosome partitioning]; Region: SulA; COG5404 547048007009 outer membrane protein A; Reviewed; Region: PRK10808 547048007010 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 547048007011 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048007012 ligand binding site [chemical binding]; other site 547048007013 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007014 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 547048007015 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 547048007016 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 547048007017 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 547048007018 active site 2 [active] 547048007019 dimer interface [polypeptide binding]; other site 547048007020 active site 1 [active] 547048007021 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 547048007022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048007023 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048007024 DNA-binding interface [nucleotide binding]; DNA binding site 547048007025 Integrase core domain; Region: rve; pfam00665 547048007026 transposase/IS protein; Provisional; Region: PRK09183 547048007027 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048007028 Walker A motif; other site 547048007029 ATP binding site [chemical binding]; other site 547048007030 Walker B motif; other site 547048007031 3-oxoacyl-(acyl carrier protein) synthase II; Provisional; Region: PRK14691 547048007032 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 547048007033 dimer interface [polypeptide binding]; other site 547048007034 active site 547048007035 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007036 Ribosome modulation factor; Region: RMF; pfam04957 547048007037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 547048007038 Protein of unknown function (DUF330); Region: DUF330; pfam03886 547048007039 paraquat-inducible protein B; Provisional; Region: PRK10807 547048007040 mce related protein; Region: MCE; pfam02470 547048007041 mce related protein; Region: MCE; pfam02470 547048007042 mce related protein; Region: MCE; pfam02470 547048007043 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 547048007044 Paraquat-inducible protein A; Region: PqiA; pfam04403 547048007045 Paraquat-inducible protein A; Region: PqiA; pfam04403 547048007046 ABC transporter ATPase component; Reviewed; Region: PRK11147 547048007047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007049 Walker A/P-loop; other site 547048007050 Walker A/P-loop; other site 547048007051 ATP binding site [chemical binding]; other site 547048007052 ATP binding site [chemical binding]; other site 547048007053 Q-loop/lid; other site 547048007054 Q-loop/lid; other site 547048007055 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048007056 ABC transporter signature motif; other site 547048007057 Walker B; other site 547048007058 D-loop; other site 547048007059 ABC transporter; Region: ABC_tran_2; pfam12848 547048007060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048007061 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 547048007062 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 547048007063 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048007064 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048007065 S-adenosylmethionine binding site [chemical binding]; other site 547048007066 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 547048007067 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 547048007068 MOSC domain; Region: MOSC; pfam03473 547048007069 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048007070 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 547048007071 catalytic loop [active] 547048007072 iron binding site [ion binding]; other site 547048007073 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 547048007074 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 547048007075 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 547048007076 quinone interaction residues [chemical binding]; other site 547048007077 active site 547048007078 catalytic residues [active] 547048007079 FMN binding site [chemical binding]; other site 547048007080 substrate binding site [chemical binding]; other site 547048007081 aminopeptidase N; Provisional; Region: pepN; PRK14015 547048007082 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 547048007083 active site 547048007084 Zn binding site [ion binding]; other site 547048007085 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 547048007086 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 547048007087 active site 547048007088 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 547048007089 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 547048007090 putative dimer interface [polypeptide binding]; other site 547048007091 putative anticodon binding site; other site 547048007092 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 547048007093 homodimer interface [polypeptide binding]; other site 547048007094 motif 1; other site 547048007095 motif 2; other site 547048007096 active site 547048007097 motif 3; other site 547048007098 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 547048007099 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 547048007100 trimer interface [polypeptide binding]; other site 547048007101 eyelet of channel; other site 547048007102 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 547048007103 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048007104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048007105 homodimer interface [polypeptide binding]; other site 547048007106 catalytic residue [active] 547048007107 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048007108 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 547048007109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 547048007110 Peptidase M15; Region: Peptidase_M15_3; cl01194 547048007111 murein L,D-transpeptidase; Provisional; Region: PRK10594 547048007112 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 547048007113 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 547048007114 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 547048007115 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007116 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 547048007117 P-loop containing region of AAA domain; Region: AAA_29; cl17516 547048007118 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 547048007119 condesin subunit E; Provisional; Region: PRK05256 547048007120 condesin subunit F; Provisional; Region: PRK05260 547048007121 Methyltransferase domain; Region: Methyltransf_31; pfam13847 547048007122 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048007123 S-adenosylmethionine binding site [chemical binding]; other site 547048007124 hypothetical protein; Provisional; Region: PRK10593 547048007125 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 547048007126 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 547048007127 Ligand binding site; other site 547048007128 oligomer interface; other site 547048007129 Trm112p-like protein; Region: Trm112p; cl01066 547048007130 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048007131 DNA-binding site [nucleotide binding]; DNA binding site 547048007132 RNA-binding motif; other site 547048007133 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 547048007134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 547048007135 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 547048007136 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 547048007137 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 547048007138 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048007139 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 547048007140 Walker A/P-loop; other site 547048007141 ATP binding site [chemical binding]; other site 547048007142 Q-loop/lid; other site 547048007143 ABC transporter signature motif; other site 547048007144 Walker B; other site 547048007145 D-loop; other site 547048007146 H-loop/switch region; other site 547048007147 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 547048007148 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 547048007149 Competence protein; Region: Competence; pfam03772 547048007150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 547048007151 ComEC family competence protein; Provisional; Region: PRK11539 547048007152 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 547048007153 IHF dimer interface [polypeptide binding]; other site 547048007154 IHF - DNA interface [nucleotide binding]; other site 547048007155 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 547048007156 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 547048007157 RNA binding site [nucleotide binding]; other site 547048007158 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 547048007159 RNA binding site [nucleotide binding]; other site 547048007160 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 547048007161 RNA binding site [nucleotide binding]; other site 547048007162 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 547048007163 RNA binding site [nucleotide binding]; other site 547048007164 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 547048007165 RNA binding site [nucleotide binding]; other site 547048007166 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 547048007167 RNA binding site [nucleotide binding]; other site 547048007168 cytidylate kinase; Provisional; Region: cmk; PRK00023 547048007169 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 547048007170 CMP-binding site; other site 547048007171 The sites determining sugar specificity; other site 547048007172 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 547048007173 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 547048007174 hinge; other site 547048007175 active site 547048007176 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 547048007177 homodimer interface [polypeptide binding]; other site 547048007178 substrate-cofactor binding pocket; other site 547048007179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048007180 catalytic residue [active] 547048007181 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 547048007182 active site 547048007183 homodimer interface [polypeptide binding]; other site 547048007184 homotetramer interface [polypeptide binding]; other site 547048007185 uncharacterized domain; Region: TIGR00702 547048007186 YcaO-like family; Region: YcaO; pfam02624 547048007187 formate transporter; Provisional; Region: PRK10805 547048007188 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 547048007189 Pyruvate formate lyase 1; Region: PFL1; cd01678 547048007190 coenzyme A binding site [chemical binding]; other site 547048007191 active site 547048007192 catalytic residues [active] 547048007193 glycine loop; other site 547048007194 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 547048007195 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 547048007196 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048007197 FeS/SAM binding site; other site 547048007198 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048007199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048007200 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048007201 DNA-binding interface [nucleotide binding]; DNA binding site 547048007202 Integrase core domain; Region: rve; pfam00665 547048007203 transposase/IS protein; Provisional; Region: PRK09183 547048007204 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048007205 Walker A motif; other site 547048007206 ATP binding site [chemical binding]; other site 547048007207 Walker B motif; other site 547048007208 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048007209 putative substrate translocation pore; other site 547048007210 seryl-tRNA synthetase; Provisional; Region: PRK05431 547048007211 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 547048007212 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 547048007213 dimer interface [polypeptide binding]; other site 547048007214 active site 547048007215 motif 1; other site 547048007216 motif 2; other site 547048007217 motif 3; other site 547048007218 recombination factor protein RarA; Reviewed; Region: PRK13342 547048007219 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048007220 Walker A motif; other site 547048007221 ATP binding site [chemical binding]; other site 547048007222 Walker B motif; other site 547048007223 arginine finger; other site 547048007224 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 547048007225 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 547048007226 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 547048007227 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 547048007228 DNA translocase FtsK; Provisional; Region: PRK10263 547048007229 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 547048007230 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 547048007231 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 547048007232 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547048007233 putative DNA binding site [nucleotide binding]; other site 547048007234 putative Zn2+ binding site [ion binding]; other site 547048007235 AsnC family; Region: AsnC_trans_reg; pfam01037 547048007236 thioredoxin reductase; Provisional; Region: PRK10262 547048007237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048007238 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048007239 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 547048007240 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048007241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007242 Walker A/P-loop; other site 547048007243 ATP binding site [chemical binding]; other site 547048007244 Q-loop/lid; other site 547048007245 ABC transporter signature motif; other site 547048007246 Walker B; other site 547048007247 D-loop; other site 547048007248 H-loop/switch region; other site 547048007249 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 547048007250 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 547048007251 Walker A/P-loop; other site 547048007252 ATP binding site [chemical binding]; other site 547048007253 Q-loop/lid; other site 547048007254 ABC transporter signature motif; other site 547048007255 Walker B; other site 547048007256 D-loop; other site 547048007257 H-loop/switch region; other site 547048007258 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 547048007259 rRNA binding site [nucleotide binding]; other site 547048007260 predicted 30S ribosome binding site; other site 547048007261 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007262 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 547048007263 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048007264 DNA-binding site [nucleotide binding]; DNA binding site 547048007265 RNA-binding motif; other site 547048007266 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 547048007267 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547048007268 Walker A/P-loop; other site 547048007269 ATP binding site [chemical binding]; other site 547048007270 Q-loop/lid; other site 547048007271 ABC transporter signature motif; other site 547048007272 Walker B; other site 547048007273 D-loop; other site 547048007274 H-loop/switch region; other site 547048007275 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547048007276 FtsX-like permease family; Region: FtsX; pfam02687 547048007277 macrolide transporter subunit MacA; Provisional; Region: PRK11578 547048007278 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048007279 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048007280 Protein of unknown function (DUF535); Region: DUF535; pfam04393 547048007281 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 547048007282 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 547048007283 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 547048007284 putative active site [active] 547048007285 putative metal-binding site [ion binding]; other site 547048007286 Predicted membrane protein [Function unknown]; Region: COG2431 547048007287 hybrid cluster protein; Provisional; Region: PRK05290 547048007288 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547048007289 ACS interaction site; other site 547048007290 CODH interaction site; other site 547048007291 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 547048007292 hybrid metal cluster; other site 547048007293 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 547048007294 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 547048007295 FAD binding pocket [chemical binding]; other site 547048007296 FAD binding motif [chemical binding]; other site 547048007297 phosphate binding motif [ion binding]; other site 547048007298 beta-alpha-beta structure motif; other site 547048007299 NAD binding pocket [chemical binding]; other site 547048007300 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048007301 catalytic loop [active] 547048007302 iron binding site [ion binding]; other site 547048007303 pyruvate dehydrogenase; Provisional; Region: PRK09124 547048007304 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 547048007305 PYR/PP interface [polypeptide binding]; other site 547048007306 dimer interface [polypeptide binding]; other site 547048007307 tetramer interface [polypeptide binding]; other site 547048007308 TPP binding site [chemical binding]; other site 547048007309 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 547048007310 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 547048007311 TPP-binding site [chemical binding]; other site 547048007312 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 547048007313 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 547048007314 tetramer interface [polypeptide binding]; other site 547048007315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048007316 catalytic residue [active] 547048007317 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 547048007318 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 547048007319 putative NAD(P) binding site [chemical binding]; other site 547048007320 putative active site [active] 547048007321 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 547048007322 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 547048007323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048007324 NAD(P) binding site [chemical binding]; other site 547048007325 active site 547048007326 putative lipoprotein; Provisional; Region: PRK10533 547048007327 chorismate mutase; Provisional; Region: PRK08055 547048007328 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 547048007329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007330 Walker A/P-loop; other site 547048007331 ATP binding site [chemical binding]; other site 547048007332 Q-loop/lid; other site 547048007333 ABC transporter signature motif; other site 547048007334 Walker B; other site 547048007335 D-loop; other site 547048007336 H-loop/switch region; other site 547048007337 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 547048007338 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048007339 substrate binding pocket [chemical binding]; other site 547048007340 membrane-bound complex binding site; other site 547048007341 hinge residues; other site 547048007342 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048007343 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007344 dimer interface [polypeptide binding]; other site 547048007345 conserved gate region; other site 547048007346 putative PBP binding loops; other site 547048007347 ABC-ATPase subunit interface; other site 547048007348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007349 dimer interface [polypeptide binding]; other site 547048007350 conserved gate region; other site 547048007351 putative PBP binding loops; other site 547048007352 ABC-ATPase subunit interface; other site 547048007353 EamA-like transporter family; Region: EamA; pfam00892 547048007354 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 547048007355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4408 547048007356 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 547048007357 Nicotianamine synthase protein; Region: NAS; cl17658 547048007358 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 547048007359 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048007360 Walker A/P-loop; other site 547048007361 ATP binding site [chemical binding]; other site 547048007362 Q-loop/lid; other site 547048007363 ABC transporter signature motif; other site 547048007364 Walker B; other site 547048007365 D-loop; other site 547048007366 H-loop/switch region; other site 547048007367 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 547048007368 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 547048007369 putative ligand binding residues [chemical binding]; other site 547048007370 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 547048007371 SPFH domain / Band 7 family; Region: Band_7; pfam01145 547048007372 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 547048007373 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048007374 substrate binding pocket [chemical binding]; other site 547048007375 membrane-bound complex binding site; other site 547048007376 hinge residues; other site 547048007377 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 547048007378 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048007379 S-adenosylmethionine binding site [chemical binding]; other site 547048007380 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 547048007381 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 547048007382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007383 dimer interface [polypeptide binding]; other site 547048007384 conserved gate region; other site 547048007385 putative PBP binding loops; other site 547048007386 ABC-ATPase subunit interface; other site 547048007387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007388 dimer interface [polypeptide binding]; other site 547048007389 conserved gate region; other site 547048007390 putative PBP binding loops; other site 547048007391 ABC-ATPase subunit interface; other site 547048007392 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 547048007393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007394 Walker A/P-loop; other site 547048007395 ATP binding site [chemical binding]; other site 547048007396 Q-loop/lid; other site 547048007397 ABC transporter signature motif; other site 547048007398 Walker B; other site 547048007399 D-loop; other site 547048007400 H-loop/switch region; other site 547048007401 TOBE domain; Region: TOBE_2; pfam08402 547048007402 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 547048007403 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048007404 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 547048007405 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 547048007406 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 547048007407 GSH binding site [chemical binding]; other site 547048007408 catalytic residues [active] 547048007409 putative transporter; Provisional; Region: PRK04972 547048007410 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 547048007411 TrkA-C domain; Region: TrkA_C; pfam02080 547048007412 TrkA-C domain; Region: TrkA_C; pfam02080 547048007413 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 547048007414 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 547048007415 active site 547048007416 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 547048007417 active site 547048007418 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 547048007419 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 547048007420 intersubunit interface [polypeptide binding]; other site 547048007421 active site 547048007422 catalytic residue [active] 547048007423 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 547048007424 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 547048007425 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 547048007426 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 547048007427 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 547048007428 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 547048007429 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 547048007430 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 547048007431 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 547048007432 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 547048007433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007434 dimer interface [polypeptide binding]; other site 547048007435 conserved gate region; other site 547048007436 ABC-ATPase subunit interface; other site 547048007437 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 547048007438 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 547048007439 Walker A/P-loop; other site 547048007440 ATP binding site [chemical binding]; other site 547048007441 Q-loop/lid; other site 547048007442 ABC transporter signature motif; other site 547048007443 Walker B; other site 547048007444 D-loop; other site 547048007445 H-loop/switch region; other site 547048007446 NIL domain; Region: NIL; pfam09383 547048007447 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 547048007448 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 547048007449 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 547048007450 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 547048007451 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 547048007452 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 547048007453 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 547048007454 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 547048007455 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 547048007456 putative C-terminal domain interface [polypeptide binding]; other site 547048007457 putative GSH binding site (G-site) [chemical binding]; other site 547048007458 putative dimer interface [polypeptide binding]; other site 547048007459 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 547048007460 putative N-terminal domain interface [polypeptide binding]; other site 547048007461 putative dimer interface [polypeptide binding]; other site 547048007462 putative substrate binding pocket (H-site) [chemical binding]; other site 547048007463 putative outer membrane receptor; Provisional; Region: PRK13513 547048007464 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048007465 N-terminal plug; other site 547048007466 ligand-binding site [chemical binding]; other site 547048007467 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 547048007468 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048007469 Walker A/P-loop; other site 547048007470 ATP binding site [chemical binding]; other site 547048007471 Q-loop/lid; other site 547048007472 ABC transporter signature motif; other site 547048007473 Walker B; other site 547048007474 D-loop; other site 547048007475 H-loop/switch region; other site 547048007476 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 547048007477 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 547048007478 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048007479 ABC-ATPase subunit interface; other site 547048007480 dimer interface [polypeptide binding]; other site 547048007481 putative PBP binding regions; other site 547048007482 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 547048007483 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 547048007484 putative ligand binding residues [chemical binding]; other site 547048007485 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 547048007486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048007487 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 547048007488 putative dimerization interface [polypeptide binding]; other site 547048007489 Predicted membrane protein [Function unknown]; Region: COG2855 547048007490 endonuclease IV; Provisional; Region: PRK01060 547048007491 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 547048007492 AP (apurinic/apyrimidinic) site pocket; other site 547048007493 DNA interaction; other site 547048007494 Metal-binding active site; metal-binding site 547048007495 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048007496 PapC N-terminal domain; Region: PapC_N; pfam13954 547048007497 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048007498 PapC C-terminal domain; Region: PapC_C; pfam13953 547048007499 pili assembly chaperone protein SafB; Provisional; Region: PRK15224 547048007500 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048007501 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048007502 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 547048007503 DNA binding site [nucleotide binding] 547048007504 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 547048007505 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 547048007506 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 547048007507 active site 547048007508 P-loop; other site 547048007509 phosphorylation site [posttranslational modification] 547048007510 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 547048007511 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 547048007512 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 547048007513 putative substrate binding site [chemical binding]; other site 547048007514 putative ATP binding site [chemical binding]; other site 547048007515 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 547048007516 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 547048007517 active site 547048007518 phosphorylation site [posttranslational modification] 547048007519 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 547048007520 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 547048007521 dimerization domain swap beta strand [polypeptide binding]; other site 547048007522 regulatory protein interface [polypeptide binding]; other site 547048007523 active site 547048007524 regulatory phosphorylation site [posttranslational modification]; other site 547048007525 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_19; cd04678 547048007526 nudix motif; other site 547048007527 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048007528 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048007529 TM-ABC transporter signature motif; other site 547048007530 potential frameshift: common BLAST hit: gi|294503293|ref|YP_003567355.1| putative ABC transport ATP-binding subunit 547048007531 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048007532 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048007533 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 547048007534 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048007535 Walker A/P-loop; other site 547048007536 ATP binding site [chemical binding]; other site 547048007537 Q-loop/lid; other site 547048007538 ABC transporter signature motif; other site 547048007539 Walker B; other site 547048007540 D-loop; other site 547048007541 H-loop/switch region; other site 547048007542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007543 Walker A/P-loop; other site 547048007544 ATP binding site [chemical binding]; other site 547048007545 Q-loop/lid; other site 547048007546 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048007547 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 547048007548 ligand binding site [chemical binding]; other site 547048007549 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 547048007550 tetramer (dimer of dimers) interface [polypeptide binding]; other site 547048007551 active site 547048007552 dimer interface [polypeptide binding]; other site 547048007553 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 547048007554 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 547048007555 N- and C-terminal domain interface [polypeptide binding]; other site 547048007556 active site 547048007557 MgATP binding site [chemical binding]; other site 547048007558 catalytic site [active] 547048007559 metal binding site [ion binding]; metal-binding site 547048007560 xylulose binding site [chemical binding]; other site 547048007561 homodimer interface [polypeptide binding]; other site 547048007562 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 547048007563 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 547048007564 tetramerization interface [polypeptide binding]; other site 547048007565 NAD(P) binding site [chemical binding]; other site 547048007566 catalytic residues [active] 547048007567 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 547048007568 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 547048007569 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 547048007570 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 547048007571 ligand binding site [chemical binding]; other site 547048007572 NAD binding site [chemical binding]; other site 547048007573 catalytic site [active] 547048007574 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 547048007575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048007576 NAD(P) binding site [chemical binding]; other site 547048007577 active site 547048007578 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 547048007579 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 547048007580 aromatic amino acid transport protein; Region: araaP; TIGR00837 547048007581 elongation factor P; Provisional; Region: PRK04542 547048007582 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 547048007583 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 547048007584 RNA binding site [nucleotide binding]; other site 547048007585 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 547048007586 RNA binding site [nucleotide binding]; other site 547048007587 mannonate dehydratase; Provisional; Region: PRK03906 547048007588 mannonate dehydratase; Region: uxuA; TIGR00695 547048007589 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 547048007590 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 547048007591 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 547048007592 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 547048007593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048007594 DNA-binding site [nucleotide binding]; DNA binding site 547048007595 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 547048007596 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 547048007597 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 547048007598 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 547048007599 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 547048007600 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 547048007601 active site 547048007602 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 547048007603 NlpC/P60 family; Region: NLPC_P60; pfam00877 547048007604 phage resistance protein; Provisional; Region: PRK10551 547048007605 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 547048007606 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048007607 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 547048007608 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 547048007609 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 547048007610 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007611 dimer interface [polypeptide binding]; other site 547048007612 conserved gate region; other site 547048007613 putative PBP binding loops; other site 547048007614 ABC-ATPase subunit interface; other site 547048007615 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 547048007616 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 547048007617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007618 dimer interface [polypeptide binding]; other site 547048007619 conserved gate region; other site 547048007620 putative PBP binding loops; other site 547048007621 ABC-ATPase subunit interface; other site 547048007622 potential frameshift: common BLAST hit: gi|294503273|ref|YP_003567335.1| putative ABC transporter ATP-binding subunit 547048007623 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 547048007624 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048007625 Walker A/P-loop; other site 547048007626 ATP binding site [chemical binding]; other site 547048007627 Q-loop/lid; other site 547048007628 ABC transporter signature motif; other site 547048007629 Walker B; other site 547048007630 D-loop; other site 547048007631 H-loop/switch region; other site 547048007632 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 547048007633 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048007634 Walker A/P-loop; other site 547048007635 ATP binding site [chemical binding]; other site 547048007636 Q-loop/lid; other site 547048007637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048007638 Walker B; other site 547048007639 D-loop; other site 547048007640 H-loop/switch region; other site 547048007641 hypothetical protein; Provisional; Region: PRK11835 547048007642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048007643 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 547048007644 putative substrate translocation pore; other site 547048007645 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 547048007646 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048007647 RNA binding surface [nucleotide binding]; other site 547048007648 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 547048007649 active site 547048007650 uracil binding [chemical binding]; other site 547048007651 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 547048007652 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048007653 ATP binding site [chemical binding]; other site 547048007654 putative Mg++ binding site [ion binding]; other site 547048007655 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048007656 nucleotide binding region [chemical binding]; other site 547048007657 ATP-binding site [chemical binding]; other site 547048007658 Double zinc ribbon; Region: DZR; pfam12773 547048007659 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 547048007660 5S rRNA interface [nucleotide binding]; other site 547048007661 CTC domain interface [polypeptide binding]; other site 547048007662 L16 interface [polypeptide binding]; other site 547048007663 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007664 Nucleoid-associated protein [General function prediction only]; Region: COG3081 547048007665 nucleoid-associated protein NdpA; Validated; Region: PRK00378 547048007666 hypothetical protein; Provisional; Region: PRK13689 547048007667 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 547048007668 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 547048007669 Sulfatase; Region: Sulfatase; cl17466 547048007670 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 547048007671 active site 547048007672 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 547048007673 beta-galactosidase; Region: BGL; TIGR03356 547048007674 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 547048007675 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048007676 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048007677 putative active site [active] 547048007678 Phage Tail Collar Domain; Region: Collar; pfam07484 547048007679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3778 547048007680 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 547048007681 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 547048007682 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 547048007683 Mu-like prophage protein gp45 [Function unknown]; Region: COG4384 547048007684 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 547048007685 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048007686 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 547048007687 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 547048007688 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048007689 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 547048007690 Phage tail tube protein; Region: Tail_tube; pfam10618 547048007691 potential frameshift: common BLAST hit: gi|294503250|ref|YP_003567312.1| putative bacteriophage tail sheath protein 547048007692 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 547048007693 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 547048007694 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 547048007695 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 547048007696 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547048007697 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 547048007698 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 547048007699 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 547048007700 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 547048007701 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 547048007702 putative aldolase; Validated; Region: PRK08130 547048007703 intersubunit interface [polypeptide binding]; other site 547048007704 active site 547048007705 Zn2+ binding site [ion binding]; other site 547048007706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 547048007707 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 547048007708 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048007709 non-specific DNA binding site [nucleotide binding]; other site 547048007710 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 547048007711 salt bridge; other site 547048007712 sequence-specific DNA binding site [nucleotide binding]; other site 547048007713 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 547048007714 Catalytic site [active] 547048007715 DinI-like family; Region: DinI; cl11630 547048007716 Outer membrane protease [Cell envelope biogenesis, outer membrane]; Region: OmpT; COG4571 547048007717 Cache domain; Region: Cache_1; pfam02743 547048007718 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048007719 dimerization interface [polypeptide binding]; other site 547048007720 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 547048007721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048007722 dimer interface [polypeptide binding]; other site 547048007723 putative CheW interface [polypeptide binding]; other site 547048007724 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 547048007725 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 547048007726 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 547048007727 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 547048007728 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 547048007729 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 547048007730 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007731 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 547048007732 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 547048007733 trimer interface [polypeptide binding]; other site 547048007734 eyelet of channel; other site 547048007735 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 547048007736 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048007737 ATP binding site [chemical binding]; other site 547048007738 Mg2+ binding site [ion binding]; other site 547048007739 G-X-G motif; other site 547048007740 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 547048007741 putative binding surface; other site 547048007742 active site 547048007743 transcriptional regulator RcsB; Provisional; Region: PRK10840 547048007744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048007745 active site 547048007746 phosphorylation site [posttranslational modification] 547048007747 intermolecular recognition site; other site 547048007748 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048007749 DNA binding residues [nucleotide binding] 547048007750 dimerization interface [polypeptide binding]; other site 547048007751 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 547048007752 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048007753 dimer interface [polypeptide binding]; other site 547048007754 phosphorylation site [posttranslational modification] 547048007755 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048007756 ATP binding site [chemical binding]; other site 547048007757 Mg2+ binding site [ion binding]; other site 547048007758 G-X-G motif; other site 547048007759 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 547048007760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048007761 active site 547048007762 phosphorylation site [posttranslational modification] 547048007763 intermolecular recognition site; other site 547048007764 dimerization interface [polypeptide binding]; other site 547048007765 DNA gyrase subunit A; Validated; Region: PRK05560 547048007766 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 547048007767 CAP-like domain; other site 547048007768 active site 547048007769 primary dimer interface [polypeptide binding]; other site 547048007770 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007771 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007772 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007773 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007774 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007775 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 547048007776 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 547048007777 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048007778 S-adenosylmethionine binding site [chemical binding]; other site 547048007779 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 547048007780 ATP cone domain; Region: ATP-cone; pfam03477 547048007781 Class I ribonucleotide reductase; Region: RNR_I; cd01679 547048007782 active site 547048007783 dimer interface [polypeptide binding]; other site 547048007784 catalytic residues [active] 547048007785 effector binding site; other site 547048007786 R2 peptide binding site; other site 547048007787 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 547048007788 dimer interface [polypeptide binding]; other site 547048007789 putative radical transfer pathway; other site 547048007790 diiron center [ion binding]; other site 547048007791 tyrosyl radical; other site 547048007792 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 547048007793 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048007794 catalytic loop [active] 547048007795 iron binding site [ion binding]; other site 547048007796 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 547048007797 secondary substrate binding site; other site 547048007798 primary substrate binding site; other site 547048007799 inhibition loop; other site 547048007800 dimerization interface [polypeptide binding]; other site 547048007801 hypothetical protein; Provisional; Region: PRK03673 547048007802 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 547048007803 putative MPT binding site; other site 547048007804 Competence-damaged protein; Region: CinA; cl00666 547048007805 tyrosine transporter TyrP; Provisional; Region: PRK15132 547048007806 aromatic amino acid transport protein; Region: araaP; TIGR00837 547048007807 YfaZ precursor; Region: YfaZ; pfam07437 547048007808 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 547048007809 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 547048007810 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 547048007811 tetramer interface [polypeptide binding]; other site 547048007812 heme binding pocket [chemical binding]; other site 547048007813 NADPH binding site [chemical binding]; other site 547048007814 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 547048007815 DEAD_2; Region: DEAD_2; pfam06733 547048007816 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 547048007817 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 547048007818 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 547048007819 trimer interface [polypeptide binding]; other site 547048007820 eyelet of channel; other site 547048007821 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 547048007822 EamA-like transporter family; Region: EamA; pfam00892 547048007823 EamA-like transporter family; Region: EamA; pfam00892 547048007824 arginine decarboxylase; Provisional; Region: PRK15029 547048007825 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 547048007826 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 547048007827 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048007828 catalytic residue [active] 547048007829 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 547048007830 arginine:agmatin antiporter; Provisional; Region: PRK10644 547048007831 arginine:agmatin antiporter; Provisional; Region: PRK10644 547048007832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007833 putative PBP binding loops; other site 547048007834 dimer interface [polypeptide binding]; other site 547048007835 ABC-ATPase subunit interface; other site 547048007836 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 547048007837 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 547048007838 Walker A/P-loop; other site 547048007839 ATP binding site [chemical binding]; other site 547048007840 Q-loop/lid; other site 547048007841 ABC transporter signature motif; other site 547048007842 Walker B; other site 547048007843 D-loop; other site 547048007844 H-loop/switch region; other site 547048007845 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 547048007846 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007847 dimer interface [polypeptide binding]; other site 547048007848 conserved gate region; other site 547048007849 ABC-ATPase subunit interface; other site 547048007850 potential frameshift: common BLAST hit: gi|186894644|ref|YP_001871756.1| glycine betaine ABC transporter substrate-binding protein 547048007851 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 547048007852 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 547048007853 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 547048007854 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 547048007855 active site residue [active] 547048007856 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 547048007857 active site residue [active] 547048007858 tyrosine decarboxylase; Region: PLN02880 547048007859 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 547048007860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048007861 catalytic residue [active] 547048007862 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 547048007863 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 547048007864 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 547048007865 Walker A/P-loop; other site 547048007866 ATP binding site [chemical binding]; other site 547048007867 Q-loop/lid; other site 547048007868 ABC transporter signature motif; other site 547048007869 Walker B; other site 547048007870 D-loop; other site 547048007871 H-loop/switch region; other site 547048007872 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]; Region: COG4674 547048007873 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 547048007874 Walker A/P-loop; other site 547048007875 ATP binding site [chemical binding]; other site 547048007876 Q-loop/lid; other site 547048007877 ABC transporter signature motif; other site 547048007878 Walker B; other site 547048007879 D-loop; other site 547048007880 H-loop/switch region; other site 547048007881 HEAT repeats; Region: HEAT_2; pfam13646 547048007882 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 547048007883 TM-ABC transporter signature motif; other site 547048007884 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 547048007885 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 547048007886 putative ligand binding site [chemical binding]; other site 547048007887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 547048007888 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 547048007889 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 547048007890 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 547048007891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007892 dimer interface [polypeptide binding]; other site 547048007893 conserved gate region; other site 547048007894 putative PBP binding loops; other site 547048007895 ABC-ATPase subunit interface; other site 547048007896 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 547048007897 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 547048007898 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048007899 dimer interface [polypeptide binding]; other site 547048007900 conserved gate region; other site 547048007901 putative PBP binding loops; other site 547048007902 ABC-ATPase subunit interface; other site 547048007903 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 547048007904 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 547048007905 Transferrin; Region: Transferrin; cl02460 547048007906 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 547048007907 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 547048007908 Walker A/P-loop; other site 547048007909 ATP binding site [chemical binding]; other site 547048007910 Q-loop/lid; other site 547048007911 ABC transporter signature motif; other site 547048007912 Walker B; other site 547048007913 D-loop; other site 547048007914 H-loop/switch region; other site 547048007915 hypothetical protein; Provisional; Region: PRK10457 547048007916 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 547048007917 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 547048007918 active site 547048007919 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 547048007920 putative active site [active] 547048007921 putative metal binding residues [ion binding]; other site 547048007922 signature motif; other site 547048007923 putative triphosphate binding site [ion binding]; other site 547048007924 dimer interface [polypeptide binding]; other site 547048007925 D-lactate dehydrogenase; Provisional; Region: PRK11183 547048007926 FAD binding domain; Region: FAD_binding_4; pfam01565 547048007927 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 547048007928 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 547048007929 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 547048007930 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 547048007931 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 547048007932 FMN binding site [chemical binding]; other site 547048007933 active site 547048007934 catalytic residues [active] 547048007935 substrate binding site [chemical binding]; other site 547048007936 Uncharacterized conserved protein [Function unknown]; Region: COG3595 547048007937 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 547048007938 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007939 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 547048007940 putative Mg++ binding site [ion binding]; other site 547048007941 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048007942 nucleotide binding region [chemical binding]; other site 547048007943 ATP-binding site [chemical binding]; other site 547048007944 Transposase; Region: DEDD_Tnp_IS110; pfam01548 547048007945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 547048007946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048007947 MULE transposase domain; Region: MULE; pfam10551 547048007948 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048007949 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048007950 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048007951 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048007952 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 547048007953 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048007954 GMP synthase; Reviewed; Region: guaA; PRK00074 547048007955 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 547048007956 AMP/PPi binding site [chemical binding]; other site 547048007957 candidate oxyanion hole; other site 547048007958 catalytic triad [active] 547048007959 potential glutamine specificity residues [chemical binding]; other site 547048007960 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 547048007961 ATP Binding subdomain [chemical binding]; other site 547048007962 Ligand Binding sites [chemical binding]; other site 547048007963 Dimerization subdomain; other site 547048007964 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 547048007965 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 547048007966 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 547048007967 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 547048007968 active site 547048007969 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 547048007970 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 547048007971 generic binding surface II; other site 547048007972 generic binding surface I; other site 547048007973 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 547048007974 Predicted permeases [General function prediction only]; Region: COG0679 547048007975 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048007976 GTP-binding protein Der; Reviewed; Region: PRK00093 547048007977 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 547048007978 G1 box; other site 547048007979 GTP/Mg2+ binding site [chemical binding]; other site 547048007980 Switch I region; other site 547048007981 G2 box; other site 547048007982 Switch II region; other site 547048007983 G3 box; other site 547048007984 G4 box; other site 547048007985 G5 box; other site 547048007986 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 547048007987 G1 box; other site 547048007988 GTP/Mg2+ binding site [chemical binding]; other site 547048007989 Switch I region; other site 547048007990 G2 box; other site 547048007991 G3 box; other site 547048007992 Switch II region; other site 547048007993 G4 box; other site 547048007994 G5 box; other site 547048007995 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 547048007996 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 547048007997 Trp docking motif [polypeptide binding]; other site 547048007998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 547048007999 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 547048008000 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 547048008001 dimer interface [polypeptide binding]; other site 547048008002 motif 1; other site 547048008003 active site 547048008004 motif 2; other site 547048008005 motif 3; other site 547048008006 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 547048008007 anticodon binding site; other site 547048008008 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 547048008009 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 547048008010 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 547048008011 cytoskeletal protein RodZ; Provisional; Region: PRK10856 547048008012 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048008013 non-specific DNA binding site [nucleotide binding]; other site 547048008014 salt bridge; other site 547048008015 sequence-specific DNA binding site [nucleotide binding]; other site 547048008016 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 547048008017 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 547048008018 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 547048008019 binding surface 547048008020 TPR motif; other site 547048008021 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 547048008022 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048008023 FeS/SAM binding site; other site 547048008024 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 547048008025 active site 547048008026 multimer interface [polypeptide binding]; other site 547048008027 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 547048008028 Beta/Gamma crystallin; Region: Crystall; cl02528 547048008029 Beta/Gamma crystallin; Region: Crystall; cl02528 547048008030 Exotoxin A binding; Region: Exotox-A_bind; pfam09101 547048008031 potential frameshift: common BLAST hit: gi|108811415|ref|YP_647182.1| autotransporter protein 547048008032 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 547048008033 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048008034 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048008035 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 547048008036 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048008037 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048008038 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048008039 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048008040 SseB protein; Region: SseB; pfam07179 547048008041 aminopeptidase B; Provisional; Region: PRK05015 547048008042 Peptidase; Region: DUF3663; pfam12404 547048008043 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 547048008044 interface (dimer of trimers) [polypeptide binding]; other site 547048008045 Substrate-binding/catalytic site; other site 547048008046 Zn-binding sites [ion binding]; other site 547048008047 hypothetical protein; Provisional; Region: PRK10721 547048008048 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 547048008049 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048008050 catalytic loop [active] 547048008051 iron binding site [ion binding]; other site 547048008052 chaperone protein HscA; Provisional; Region: hscA; PRK05183 547048008053 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 547048008054 nucleotide binding site [chemical binding]; other site 547048008055 putative NEF/HSP70 interaction site [polypeptide binding]; other site 547048008056 SBD interface [polypeptide binding]; other site 547048008057 co-chaperone HscB; Provisional; Region: hscB; PRK05014 547048008058 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 547048008059 HSP70 interaction site [polypeptide binding]; other site 547048008060 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 547048008061 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 547048008062 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 547048008063 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 547048008064 trimerization site [polypeptide binding]; other site 547048008065 active site 547048008066 cysteine desulfurase; Provisional; Region: PRK14012 547048008067 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 547048008068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048008069 catalytic residue [active] 547048008070 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 547048008071 Rrf2 family protein; Region: rrf2_super; TIGR00738 547048008072 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 547048008073 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 547048008074 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 547048008075 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 547048008076 active site 547048008077 dimerization interface [polypeptide binding]; other site 547048008078 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008079 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 547048008080 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 547048008081 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 547048008082 PRD domain; Region: PRD; pfam00874 547048008083 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 547048008084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048008085 putative substrate translocation pore; other site 547048008086 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 547048008087 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 547048008088 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 547048008089 dimer interface [polypeptide binding]; other site 547048008090 active site 547048008091 glycine-pyridoxal phosphate binding site [chemical binding]; other site 547048008092 folate binding site [chemical binding]; other site 547048008093 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 547048008094 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 547048008095 heme-binding site [chemical binding]; other site 547048008096 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 547048008097 FAD binding pocket [chemical binding]; other site 547048008098 FAD binding motif [chemical binding]; other site 547048008099 phosphate binding motif [ion binding]; other site 547048008100 beta-alpha-beta structure motif; other site 547048008101 NAD binding pocket [chemical binding]; other site 547048008102 Heme binding pocket [chemical binding]; other site 547048008103 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048008104 DNA-binding site [nucleotide binding]; DNA binding site 547048008105 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 547048008106 Nitrogen regulatory protein P-II; Region: P-II; smart00938 547048008107 NAD synthetase; Provisional; Region: PRK13981 547048008108 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 547048008109 multimer interface [polypeptide binding]; other site 547048008110 active site 547048008111 catalytic triad [active] 547048008112 protein interface 1 [polypeptide binding]; other site 547048008113 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 547048008114 homodimer interface [polypeptide binding]; other site 547048008115 NAD binding pocket [chemical binding]; other site 547048008116 ATP binding pocket [chemical binding]; other site 547048008117 Mg binding site [ion binding]; other site 547048008118 active-site loop [active] 547048008119 response regulator GlrR; Provisional; Region: PRK15115 547048008120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048008121 active site 547048008122 phosphorylation site [posttranslational modification] 547048008123 intermolecular recognition site; other site 547048008124 dimerization interface [polypeptide binding]; other site 547048008125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008126 Walker A motif; other site 547048008127 ATP binding site [chemical binding]; other site 547048008128 Walker B motif; other site 547048008129 arginine finger; other site 547048008130 hypothetical protein; Provisional; Region: PRK10722 547048008131 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 547048008132 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048008133 dimer interface [polypeptide binding]; other site 547048008134 phosphorylation site [posttranslational modification] 547048008135 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048008136 ATP binding site [chemical binding]; other site 547048008137 Mg2+ binding site [ion binding]; other site 547048008138 G-X-G motif; other site 547048008139 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008140 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 547048008141 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 547048008142 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048008143 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 547048008144 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 547048008145 dimerization interface [polypeptide binding]; other site 547048008146 ATP binding site [chemical binding]; other site 547048008147 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 547048008148 dimerization interface [polypeptide binding]; other site 547048008149 ATP binding site [chemical binding]; other site 547048008150 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 547048008151 putative active site [active] 547048008152 catalytic triad [active] 547048008153 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 547048008154 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048008155 substrate binding pocket [chemical binding]; other site 547048008156 membrane-bound complex binding site; other site 547048008157 hinge residues; other site 547048008158 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048008159 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048008160 catalytic residue [active] 547048008161 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 547048008162 nucleoside/Zn binding site; other site 547048008163 dimer interface [polypeptide binding]; other site 547048008164 catalytic motif [active] 547048008165 haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB; Region: YfhB_g-proteo; TIGR01545 547048008166 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 547048008167 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 547048008168 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 547048008169 putative active site [active] 547048008170 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048008171 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 547048008172 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048008173 putative active site [active] 547048008174 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 547048008175 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008176 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 547048008177 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 547048008178 active site 547048008179 hydrophilic channel; other site 547048008180 dimerization interface [polypeptide binding]; other site 547048008181 catalytic residues [active] 547048008182 active site lid [active] 547048008183 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 547048008184 Recombination protein O N terminal; Region: RecO_N; pfam11967 547048008185 Recombination protein O C terminal; Region: RecO_C; pfam02565 547048008186 GTPase Era; Reviewed; Region: era; PRK00089 547048008187 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 547048008188 G1 box; other site 547048008189 GTP/Mg2+ binding site [chemical binding]; other site 547048008190 Switch I region; other site 547048008191 G2 box; other site 547048008192 Switch II region; other site 547048008193 G3 box; other site 547048008194 G4 box; other site 547048008195 G5 box; other site 547048008196 KH domain; Region: KH_2; pfam07650 547048008197 ribonuclease III; Reviewed; Region: rnc; PRK00102 547048008198 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 547048008199 dimerization interface [polypeptide binding]; other site 547048008200 active site 547048008201 metal binding site [ion binding]; metal-binding site 547048008202 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 547048008203 dsRNA binding site [nucleotide binding]; other site 547048008204 signal peptidase I; Provisional; Region: PRK10861 547048008205 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 547048008206 Catalytic site [active] 547048008207 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 547048008208 GTP-binding protein LepA; Provisional; Region: PRK05433 547048008209 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 547048008210 G1 box; other site 547048008211 putative GEF interaction site [polypeptide binding]; other site 547048008212 GTP/Mg2+ binding site [chemical binding]; other site 547048008213 Switch I region; other site 547048008214 G2 box; other site 547048008215 G3 box; other site 547048008216 Switch II region; other site 547048008217 G4 box; other site 547048008218 G5 box; other site 547048008219 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 547048008220 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 547048008221 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 547048008222 SoxR reducing system protein RseC; Provisional; Region: PRK10862 547048008223 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 547048008224 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547048008225 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 547048008226 DNA binding residues [nucleotide binding] 547048008227 L-aspartate oxidase; Provisional; Region: PRK09077 547048008228 L-aspartate oxidase; Provisional; Region: PRK06175 547048008229 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 547048008230 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 547048008231 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048008232 S-adenosylmethionine binding site [chemical binding]; other site 547048008233 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 547048008234 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547048008235 ATP binding site [chemical binding]; other site 547048008236 Mg++ binding site [ion binding]; other site 547048008237 motif III; other site 547048008238 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048008239 nucleotide binding region [chemical binding]; other site 547048008240 ATP-binding site [chemical binding]; other site 547048008241 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 547048008242 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 547048008243 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 547048008244 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 547048008245 nucleophilic elbow; other site 547048008246 catalytic triad; other site 547048008247 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 547048008248 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 547048008249 putative substrate binding pocket [chemical binding]; other site 547048008250 AC domain interface; other site 547048008251 catalytic triad [active] 547048008252 AB domain interface; other site 547048008253 interchain disulfide; other site 547048008254 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 547048008255 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 547048008256 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 547048008257 Uncharacterized conserved protein [Function unknown]; Region: COG0327 547048008258 metal-binding protein; Provisional; Region: PRK10799 547048008259 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 547048008260 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 547048008261 DNA photolyase; Region: DNA_photolyase; pfam00875 547048008262 hypothetical protein; Provisional; Region: PRK10167 547048008263 Uncharacterized conserved protein [Function unknown]; Region: COG3272 547048008264 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 547048008265 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 547048008266 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 547048008267 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048008268 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 547048008269 sensor protein KdpD; Provisional; Region: PRK10490 547048008270 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 547048008271 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 547048008272 Ligand Binding Site [chemical binding]; other site 547048008273 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 547048008274 GAF domain; Region: GAF_3; pfam13492 547048008275 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048008276 dimer interface [polypeptide binding]; other site 547048008277 phosphorylation site [posttranslational modification] 547048008278 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048008279 ATP binding site [chemical binding]; other site 547048008280 Mg2+ binding site [ion binding]; other site 547048008281 G-X-G motif; other site 547048008282 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 547048008283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048008284 active site 547048008285 phosphorylation site [posttranslational modification] 547048008286 intermolecular recognition site; other site 547048008287 dimerization interface [polypeptide binding]; other site 547048008288 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048008289 DNA binding site [nucleotide binding] 547048008290 Predicted membrane protein [Function unknown]; Region: COG2510 547048008291 phosphoglucomutase; Validated; Region: PRK07564 547048008292 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 547048008293 active site 547048008294 substrate binding site [chemical binding]; other site 547048008295 metal binding site [ion binding]; metal-binding site 547048008296 replication initiation regulator SeqA; Provisional; Region: PRK11187 547048008297 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 547048008298 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 547048008299 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 547048008300 putative active site [active] 547048008301 YdjC motif; other site 547048008302 Mg binding site [ion binding]; other site 547048008303 putative homodimer interface [polypeptide binding]; other site 547048008304 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 547048008305 Cupin domain; Region: Cupin_2; cl17218 547048008306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048008307 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 547048008308 methionine cluster; other site 547048008309 active site 547048008310 phosphorylation site [posttranslational modification] 547048008311 metal binding site [ion binding]; metal-binding site 547048008312 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 547048008313 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 547048008314 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 547048008315 active site 547048008316 P-loop; other site 547048008317 phosphorylation site [posttranslational modification] 547048008318 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 547048008319 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 547048008320 voltage-gated potassium channel; Provisional; Region: PRK10537 547048008321 Ion channel; Region: Ion_trans_2; pfam07885 547048008322 TrkA-N domain; Region: TrkA_N; pfam02254 547048008323 acid-resistance protein; Provisional; Region: hdeB; PRK11566 547048008324 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 547048008325 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 547048008326 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 547048008327 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 547048008328 UreF; Region: UreF; pfam01730 547048008329 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 547048008330 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 547048008331 dimer interface [polypeptide binding]; other site 547048008332 catalytic residues [active] 547048008333 urease subunit alpha; Reviewed; Region: ureC; PRK13309 547048008334 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 547048008335 subunit interactions [polypeptide binding]; other site 547048008336 active site 547048008337 flap region; other site 547048008338 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 547048008339 alpha-beta subunit interface [polypeptide binding]; other site 547048008340 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 547048008341 alpha-gamma subunit interface [polypeptide binding]; other site 547048008342 beta-gamma subunit interface [polypeptide binding]; other site 547048008343 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 547048008344 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048008345 dimer interface [polypeptide binding]; other site 547048008346 conserved gate region; other site 547048008347 putative PBP binding loops; other site 547048008348 ABC-ATPase subunit interface; other site 547048008349 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 547048008350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048008351 dimer interface [polypeptide binding]; other site 547048008352 conserved gate region; other site 547048008353 putative PBP binding loops; other site 547048008354 ABC-ATPase subunit interface; other site 547048008355 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 547048008356 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 547048008357 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048008358 DNA-binding site [nucleotide binding]; DNA binding site 547048008359 RNA-binding motif; other site 547048008360 MbeD/MobD like; Region: MbeD_MobD; pfam04899 547048008361 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 547048008362 hypothetical protein; Provisional; Region: PRK10556 547048008363 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 547048008364 catalytic residues [active] 547048008365 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 547048008366 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 547048008367 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 547048008368 Class I ribonucleotide reductase; Region: RNR_I; cd01679 547048008369 active site 547048008370 dimer interface [polypeptide binding]; other site 547048008371 catalytic residues [active] 547048008372 effector binding site; other site 547048008373 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 547048008374 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 547048008375 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 547048008376 dimer interface [polypeptide binding]; other site 547048008377 putative radical transfer pathway; other site 547048008378 diiron center [ion binding]; other site 547048008379 tyrosyl radical; other site 547048008380 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 547048008381 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 547048008382 Walker A/P-loop; other site 547048008383 ATP binding site [chemical binding]; other site 547048008384 Q-loop/lid; other site 547048008385 ABC transporter signature motif; other site 547048008386 Walker B; other site 547048008387 D-loop; other site 547048008388 H-loop/switch region; other site 547048008389 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 547048008390 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 547048008391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048008392 dimer interface [polypeptide binding]; other site 547048008393 conserved gate region; other site 547048008394 putative PBP binding loops; other site 547048008395 ABC-ATPase subunit interface; other site 547048008396 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 547048008397 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 547048008398 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048008399 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 547048008400 tetramer interface [polypeptide binding]; other site 547048008401 active site 547048008402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048008403 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048008404 DNA-binding interface [nucleotide binding]; DNA binding site 547048008405 Integrase core domain; Region: rve; pfam00665 547048008406 transposase/IS protein; Provisional; Region: PRK09183 547048008407 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008408 Walker A motif; other site 547048008409 ATP binding site [chemical binding]; other site 547048008410 Walker B motif; other site 547048008411 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048008412 Transposase; Region: HTH_Tnp_1; pfam01527 547048008413 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048008414 active site 547048008415 Int/Topo IB signature motif; other site 547048008416 acyl-CoA esterase; Provisional; Region: PRK10673 547048008417 PGAP1-like protein; Region: PGAP1; pfam07819 547048008418 LexA regulated protein; Provisional; Region: PRK11675 547048008419 flavodoxin FldA; Validated; Region: PRK09267 547048008420 ferric uptake regulator; Provisional; Region: fur; PRK09462 547048008421 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 547048008422 metal binding site 2 [ion binding]; metal-binding site 547048008423 putative DNA binding helix; other site 547048008424 metal binding site 1 [ion binding]; metal-binding site 547048008425 dimer interface [polypeptide binding]; other site 547048008426 structural Zn2+ binding site [ion binding]; other site 547048008427 outer membrane porin, OprD family; Region: OprD; pfam03573 547048008428 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 547048008429 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547048008430 active site 547048008431 HIGH motif; other site 547048008432 nucleotide binding site [chemical binding]; other site 547048008433 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 547048008434 KMSKS motif; other site 547048008435 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 547048008436 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008437 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 547048008438 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 547048008439 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 547048008440 active site turn [active] 547048008441 phosphorylation site [posttranslational modification] 547048008442 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 547048008443 HPr interaction site; other site 547048008444 glycerol kinase (GK) interaction site [polypeptide binding]; other site 547048008445 active site 547048008446 phosphorylation site [posttranslational modification] 547048008447 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 547048008448 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 547048008449 active site 547048008450 trimer interface [polypeptide binding]; other site 547048008451 allosteric site; other site 547048008452 active site lid [active] 547048008453 hexamer (dimer of trimers) interface [polypeptide binding]; other site 547048008454 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 547048008455 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 547048008456 active site 547048008457 dimer interface [polypeptide binding]; other site 547048008458 MarR family; Region: MarR; pfam01047 547048008459 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 547048008460 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048008461 nucleotide binding site [chemical binding]; other site 547048008462 UMP phosphatase; Provisional; Region: PRK10444 547048008463 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048008464 active site 547048008465 motif I; other site 547048008466 motif II; other site 547048008467 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048008468 asparagine synthetase B; Provisional; Region: asnB; PRK09431 547048008469 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 547048008470 active site 547048008471 dimer interface [polypeptide binding]; other site 547048008472 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 547048008473 Ligand Binding Site [chemical binding]; other site 547048008474 Molecular Tunnel; other site 547048008475 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 547048008476 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 547048008477 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 547048008478 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 547048008479 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048008480 FeS/SAM binding site; other site 547048008481 TRAM domain; Region: TRAM; pfam01938 547048008482 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 547048008483 PhoH-like protein; Region: PhoH; pfam02562 547048008484 metal-binding heat shock protein; Provisional; Region: PRK00016 547048008485 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 547048008486 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 547048008487 Transporter associated domain; Region: CorC_HlyC; smart01091 547048008488 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 547048008489 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 547048008490 putative active site [active] 547048008491 catalytic triad [active] 547048008492 putative dimer interface [polypeptide binding]; other site 547048008493 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 547048008494 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048008495 substrate binding pocket [chemical binding]; other site 547048008496 membrane-bound complex binding site; other site 547048008497 hinge residues; other site 547048008498 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048008499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048008500 dimer interface [polypeptide binding]; other site 547048008501 conserved gate region; other site 547048008502 putative PBP binding loops; other site 547048008503 ABC-ATPase subunit interface; other site 547048008504 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048008505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048008506 dimer interface [polypeptide binding]; other site 547048008507 conserved gate region; other site 547048008508 putative PBP binding loops; other site 547048008509 ABC-ATPase subunit interface; other site 547048008510 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 547048008511 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 547048008512 Walker A/P-loop; other site 547048008513 ATP binding site [chemical binding]; other site 547048008514 Q-loop/lid; other site 547048008515 ABC transporter signature motif; other site 547048008516 Walker B; other site 547048008517 D-loop; other site 547048008518 H-loop/switch region; other site 547048008519 hypothetical protein; Provisional; Region: PRK11032 547048008520 Flagella accessory protein C (FlaC); Region: FlaC_arch; cl10488 547048008521 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 547048008522 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 547048008523 HIGH motif; other site 547048008524 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 547048008525 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547048008526 active site 547048008527 KMSKS motif; other site 547048008528 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 547048008529 tRNA binding surface [nucleotide binding]; other site 547048008530 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 547048008531 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 547048008532 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 547048008533 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 547048008534 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 547048008535 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 547048008536 active site 547048008537 (T/H)XGH motif; other site 547048008538 ribosome-associated protein; Provisional; Region: PRK11538 547048008539 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 547048008540 penicillin-binding protein 2; Provisional; Region: PRK10795 547048008541 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 547048008542 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 547048008543 cell wall shape-determining protein; Provisional; Region: PRK10794 547048008544 rare lipoprotein A; Provisional; Region: PRK10672 547048008545 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 547048008546 Sporulation related domain; Region: SPOR; pfam05036 547048008547 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 547048008548 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 547048008549 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 547048008550 hypothetical protein; Provisional; Region: PRK04998 547048008551 lipoate-protein ligase B; Provisional; Region: PRK14342 547048008552 lipoyl synthase; Provisional; Region: PRK05481 547048008553 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048008554 FeS/SAM binding site; other site 547048008555 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 547048008556 chromosome condensation membrane protein; Provisional; Region: PRK14196 547048008557 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048008558 DNA-binding site [nucleotide binding]; DNA binding site 547048008559 RNA-binding motif; other site 547048008560 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 547048008561 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048008562 DNA binding residues [nucleotide binding] 547048008563 dimerization interface [polypeptide binding]; other site 547048008564 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 547048008565 Glycogen synthesis protein; Region: GlgS; cl11663 547048008566 Uncharacterized conserved protein [Function unknown]; Region: COG1359 547048008567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048008568 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 547048008569 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 547048008570 Walker A/P-loop; other site 547048008571 ATP binding site [chemical binding]; other site 547048008572 Q-loop/lid; other site 547048008573 ABC transporter signature motif; other site 547048008574 Walker B; other site 547048008575 D-loop; other site 547048008576 H-loop/switch region; other site 547048008577 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 547048008578 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 547048008579 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048008580 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 547048008581 substrate binding site [chemical binding]; other site 547048008582 ATP binding site [chemical binding]; other site 547048008583 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 547048008584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 547048008585 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547048008586 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048008587 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048008588 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048008589 TM-ABC transporter signature motif; other site 547048008590 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048008591 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048008592 Walker A/P-loop; other site 547048008593 ATP binding site [chemical binding]; other site 547048008594 Q-loop/lid; other site 547048008595 ABC transporter signature motif; other site 547048008596 Walker B; other site 547048008597 D-loop; other site 547048008598 H-loop/switch region; other site 547048008599 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048008600 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048008601 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 547048008602 ligand binding site [chemical binding]; other site 547048008603 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 547048008604 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 547048008605 PYR/PP interface [polypeptide binding]; other site 547048008606 dimer interface [polypeptide binding]; other site 547048008607 TPP binding site [chemical binding]; other site 547048008608 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 547048008609 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 547048008610 TPP-binding site; other site 547048008611 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 547048008612 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 547048008613 tetrameric interface [polypeptide binding]; other site 547048008614 NAD binding site [chemical binding]; other site 547048008615 catalytic residues [active] 547048008616 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 547048008617 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048008618 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048008619 putative active site [active] 547048008620 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 547048008621 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 547048008622 MG2 domain; Region: A2M_N; pfam01835 547048008623 Alpha-2-macroglobulin family; Region: A2M; pfam00207 547048008624 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 547048008625 surface patch; other site 547048008626 thioester region; other site 547048008627 specificity defining residues; other site 547048008628 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008629 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 547048008630 Transglycosylase; Region: Transgly; pfam00912 547048008631 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 547048008632 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 547048008633 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 547048008634 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048008635 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048008636 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 547048008637 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 547048008638 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048008639 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048008640 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048008641 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 547048008642 Uncharacterized conserved protein [Function unknown]; Region: COG2850 547048008643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048008644 MULE transposase domain; Region: MULE; pfam10551 547048008645 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 547048008646 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 547048008647 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 547048008648 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048008649 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048008650 active site 547048008651 catalytic tetrad [active] 547048008652 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048008653 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048008654 active site 547048008655 catalytic tetrad [active] 547048008656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048008657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048008658 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 547048008659 putative effector binding pocket; other site 547048008660 putative dimerization interface [polypeptide binding]; other site 547048008661 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048008662 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048008663 DNA-binding interface [nucleotide binding]; DNA binding site 547048008664 Integrase core domain; Region: rve; pfam00665 547048008665 transposase/IS protein; Provisional; Region: PRK09183 547048008666 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008667 Walker A motif; other site 547048008668 ATP binding site [chemical binding]; other site 547048008669 Walker B motif; other site 547048008670 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 547048008671 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 547048008672 active site 547048008673 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 547048008674 active site 547048008675 catalytic residues [active] 547048008676 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 547048008677 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 547048008678 Putative methyltransferase; Region: Methyltransf_20; pfam12147 547048008679 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 547048008680 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 547048008681 putative acyl-acceptor binding pocket; other site 547048008682 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 547048008683 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 547048008684 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 547048008685 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 547048008686 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 547048008687 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 547048008688 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 547048008689 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 547048008690 homodimer interface [polypeptide binding]; other site 547048008691 NADP binding site [chemical binding]; other site 547048008692 substrate binding site [chemical binding]; other site 547048008693 ribosome-associated protein; Provisional; Region: PRK11507 547048008694 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048008695 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 547048008696 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 547048008697 active site 547048008698 HIGH motif; other site 547048008699 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 547048008700 KMSKS motif; other site 547048008701 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 547048008702 tRNA binding surface [nucleotide binding]; other site 547048008703 anticodon binding site; other site 547048008704 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 547048008705 substrate binding site [chemical binding]; other site 547048008706 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 547048008707 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 547048008708 putative active site [active] 547048008709 putative metal binding site [ion binding]; other site 547048008710 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 547048008711 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 547048008712 ATP-grasp domain; Region: ATP-grasp; pfam02222 547048008713 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 547048008714 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 547048008715 FtsX-like permease family; Region: FtsX; pfam02687 547048008716 FtsX-like permease family; Region: FtsX; pfam02687 547048008717 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 547048008718 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 547048008719 Walker A/P-loop; other site 547048008720 ATP binding site [chemical binding]; other site 547048008721 Q-loop/lid; other site 547048008722 ABC transporter signature motif; other site 547048008723 Walker B; other site 547048008724 D-loop; other site 547048008725 H-loop/switch region; other site 547048008726 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 547048008727 active site 547048008728 catalytic triad [active] 547048008729 oxyanion hole [active] 547048008730 switch loop; other site 547048008731 oxidoreductase; Provisional; Region: PRK08017 547048008732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048008733 NAD(P) binding site [chemical binding]; other site 547048008734 active site 547048008735 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 547048008736 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 547048008737 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 547048008738 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 547048008739 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 547048008740 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 547048008741 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 547048008742 DNA binding residues [nucleotide binding] 547048008743 dimer interface [polypeptide binding]; other site 547048008744 copper binding site [ion binding]; other site 547048008745 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547048008746 metal-binding site [ion binding] 547048008747 copper exporting ATPase; Provisional; Region: copA; PRK10671 547048008748 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547048008749 metal-binding site [ion binding] 547048008750 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 547048008751 metal-binding site [ion binding] 547048008752 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048008753 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048008754 motif II; other site 547048008755 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 547048008756 putative deacylase active site [active] 547048008757 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048008758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048008759 putative substrate translocation pore; other site 547048008760 putative cation:proton antiport protein; Provisional; Region: PRK10669 547048008761 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 547048008762 TrkA-N domain; Region: TrkA_N; pfam02254 547048008763 inosine/guanosine kinase; Provisional; Region: PRK15074 547048008764 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048008765 substrate binding site [chemical binding]; other site 547048008766 ATP binding site [chemical binding]; other site 547048008767 LPS O-antigen length regulator; Provisional; Region: PRK10381 547048008768 Chain length determinant protein; Region: Wzz; pfam02706 547048008769 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 547048008770 phosphomannomutase CpsG; Provisional; Region: PRK15414 547048008771 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 547048008772 active site 547048008773 substrate binding site [chemical binding]; other site 547048008774 metal binding site [ion binding]; metal-binding site 547048008775 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 547048008776 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 547048008777 metal-binding site 547048008778 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 547048008779 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 547048008780 Substrate binding site; other site 547048008781 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 547048008782 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 547048008783 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 547048008784 NADP binding site [chemical binding]; other site 547048008785 active site 547048008786 putative substrate binding site [chemical binding]; other site 547048008787 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 547048008788 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 547048008789 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 547048008790 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 547048008791 active site 547048008792 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048008793 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 547048008794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 547048008795 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 547048008796 NAD(P) binding site [chemical binding]; other site 547048008797 active site 547048008798 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 547048008799 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 547048008800 inhibitor-cofactor binding pocket; inhibition site 547048008801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048008802 catalytic residue [active] 547048008803 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 547048008804 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 547048008805 NAD binding site [chemical binding]; other site 547048008806 homotetramer interface [polypeptide binding]; other site 547048008807 homodimer interface [polypeptide binding]; other site 547048008808 substrate binding site [chemical binding]; other site 547048008809 active site 547048008810 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 547048008811 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 547048008812 substrate binding site; other site 547048008813 potential frameshift: common BLAST hit: gi|294504855|ref|YP_003568917.1| CDP-6-deoxy-delta-3,4-glucoseen reductase 547048008814 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 547048008815 FAD binding pocket [chemical binding]; other site 547048008816 FAD binding motif [chemical binding]; other site 547048008817 phosphate binding motif [ion binding]; other site 547048008818 beta-alpha-beta structure motif; other site 547048008819 NAD binding pocket [chemical binding]; other site 547048008820 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048008821 catalytic loop [active] 547048008822 iron binding site [ion binding]; other site 547048008823 ferrochelatase; Reviewed; Region: hemH; PRK00035 547048008824 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 547048008825 C-terminal domain interface [polypeptide binding]; other site 547048008826 active site 547048008827 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 547048008828 active site 547048008829 N-terminal domain interface [polypeptide binding]; other site 547048008830 adenylate kinase; Reviewed; Region: adk; PRK00279 547048008831 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 547048008832 AMP-binding site [chemical binding]; other site 547048008833 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 547048008834 heat shock protein 90; Provisional; Region: PRK05218 547048008835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048008836 ATP binding site [chemical binding]; other site 547048008837 Mg2+ binding site [ion binding]; other site 547048008838 G-X-G motif; other site 547048008839 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 547048008840 RecR protein; Region: RecR; pfam02132 547048008841 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 547048008842 putative active site [active] 547048008843 putative metal-binding site [ion binding]; other site 547048008844 tetramer interface [polypeptide binding]; other site 547048008845 hypothetical protein; Validated; Region: PRK00153 547048008846 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 547048008847 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008848 Walker A motif; other site 547048008849 ATP binding site [chemical binding]; other site 547048008850 Walker B motif; other site 547048008851 arginine finger; other site 547048008852 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 547048008853 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 547048008854 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 547048008855 hypothetical protein; Provisional; Region: PRK10527 547048008856 Primosomal replication protein priB and priC; Region: priB_priC; pfam07445 547048008857 hypothetical protein; Provisional; Region: PRK11038 547048008858 hypothetical protein; Provisional; Region: PRK11281 547048008859 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 547048008860 Mechanosensitive ion channel; Region: MS_channel; pfam00924 547048008861 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 547048008862 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 547048008863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 547048008864 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 547048008865 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 547048008866 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048008867 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048008868 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 547048008869 Protein export membrane protein; Region: SecD_SecF; cl14618 547048008870 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 547048008871 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 547048008872 Hha toxicity attenuator; Provisional; Region: PRK10667 547048008873 gene expression modulator; Provisional; Region: PRK10945 547048008874 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 547048008875 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 547048008876 DNA binding site [nucleotide binding] 547048008877 active site 547048008878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 547048008879 acyl-CoA thioesterase II; Provisional; Region: PRK10526 547048008880 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 547048008881 active site 547048008882 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 547048008883 catalytic triad [active] 547048008884 dimer interface [polypeptide binding]; other site 547048008885 ammonium transporter; Provisional; Region: PRK10666 547048008886 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 547048008887 Nitrogen regulatory protein P-II; Region: P-II; smart00938 547048008888 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 547048008889 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048008890 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 547048008891 Walker A/P-loop; other site 547048008892 ATP binding site [chemical binding]; other site 547048008893 Q-loop/lid; other site 547048008894 ABC transporter signature motif; other site 547048008895 Walker B; other site 547048008896 D-loop; other site 547048008897 H-loop/switch region; other site 547048008898 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 547048008899 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 547048008900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048008901 Walker A/P-loop; other site 547048008902 ATP binding site [chemical binding]; other site 547048008903 Q-loop/lid; other site 547048008904 ABC transporter signature motif; other site 547048008905 Walker B; other site 547048008906 D-loop; other site 547048008907 H-loop/switch region; other site 547048008908 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 547048008909 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547048008910 putative DNA binding site [nucleotide binding]; other site 547048008911 putative Zn2+ binding site [ion binding]; other site 547048008912 AsnC family; Region: AsnC_trans_reg; pfam01037 547048008913 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 547048008914 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 547048008915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048008916 catalytic residue [active] 547048008917 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 547048008918 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048008919 active site 547048008920 motif I; other site 547048008921 motif II; other site 547048008922 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 547048008923 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 547048008924 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 547048008925 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 547048008926 Ligand Binding Site [chemical binding]; other site 547048008927 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 547048008928 active site 547048008929 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 547048008930 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 547048008931 periplasmic folding chaperone; Provisional; Region: PRK10788 547048008932 SurA N-terminal domain; Region: SurA_N_3; cl07813 547048008933 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 547048008934 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 547048008935 IHF dimer interface [polypeptide binding]; other site 547048008936 IHF - DNA interface [nucleotide binding]; other site 547048008937 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 547048008938 Found in ATP-dependent protease La (LON); Region: LON; smart00464 547048008939 Found in ATP-dependent protease La (LON); Region: LON; smart00464 547048008940 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008941 Walker A motif; other site 547048008942 ATP binding site [chemical binding]; other site 547048008943 Walker B motif; other site 547048008944 arginine finger; other site 547048008945 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 547048008946 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 547048008947 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 547048008948 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048008949 Walker A motif; other site 547048008950 ATP binding site [chemical binding]; other site 547048008951 Walker B motif; other site 547048008952 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547048008953 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 547048008954 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 547048008955 oligomer interface [polypeptide binding]; other site 547048008956 active site residues [active] 547048008957 trigger factor; Provisional; Region: tig; PRK01490 547048008958 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 547048008959 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 547048008960 transcriptional regulator BolA; Provisional; Region: PRK11628 547048008961 hypothetical protein; Provisional; Region: PRK11627 547048008962 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 547048008963 muropeptide transporter; Reviewed; Region: ampG; PRK11902 547048008964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048008965 putative substrate translocation pore; other site 547048008966 hypothetical protein; Provisional; Region: PRK11528 547048008967 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 547048008968 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 547048008969 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 547048008970 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 547048008971 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 547048008972 D-pathway; other site 547048008973 Putative ubiquinol binding site [chemical binding]; other site 547048008974 Low-spin heme (heme b) binding site [chemical binding]; other site 547048008975 Putative water exit pathway; other site 547048008976 Binuclear center (heme o3/CuB) [ion binding]; other site 547048008977 K-pathway; other site 547048008978 Putative proton exit pathway; other site 547048008979 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 547048008980 Subunit I/III interface [polypeptide binding]; other site 547048008981 Subunit III/IV interface [polypeptide binding]; other site 547048008982 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 547048008983 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 547048008984 UbiA prenyltransferase family; Region: UbiA; pfam01040 547048008985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048008986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 547048008987 putative substrate translocation pore; other site 547048008988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 547048008989 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 547048008990 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 547048008991 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 547048008992 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 547048008993 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 547048008994 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 547048008995 conserved cys residue [active] 547048008996 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 547048008997 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 547048008998 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 547048008999 Ligand Binding Site [chemical binding]; other site 547048009000 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 547048009001 active site residue [active] 547048009002 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 547048009003 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 547048009004 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 547048009005 substrate binding pocket [chemical binding]; other site 547048009006 chain length determination region; other site 547048009007 substrate-Mg2+ binding site; other site 547048009008 catalytic residues [active] 547048009009 aspartate-rich region 1; other site 547048009010 active site lid residues [active] 547048009011 aspartate-rich region 2; other site 547048009012 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 547048009013 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 547048009014 TPP-binding site; other site 547048009015 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 547048009016 PYR/PP interface [polypeptide binding]; other site 547048009017 dimer interface [polypeptide binding]; other site 547048009018 TPP binding site [chemical binding]; other site 547048009019 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 547048009020 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009021 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 547048009022 tetramer interfaces [polypeptide binding]; other site 547048009023 binuclear metal-binding site [ion binding]; other site 547048009024 thiamine monophosphate kinase; Provisional; Region: PRK05731 547048009025 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 547048009026 ATP binding site [chemical binding]; other site 547048009027 dimerization interface [polypeptide binding]; other site 547048009028 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 547048009029 putative RNA binding site [nucleotide binding]; other site 547048009030 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 547048009031 homopentamer interface [polypeptide binding]; other site 547048009032 active site 547048009033 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 547048009034 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 547048009035 catalytic motif [active] 547048009036 Zn binding site [ion binding]; other site 547048009037 RibD C-terminal domain; Region: RibD_C; cl17279 547048009038 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 547048009039 ATP cone domain; Region: ATP-cone; pfam03477 547048009040 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009041 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 547048009042 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 547048009043 Protein export membrane protein; Region: SecD_SecF; pfam02355 547048009044 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 547048009045 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 547048009046 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 547048009047 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 547048009048 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 547048009049 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 547048009050 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 547048009051 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 547048009052 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 547048009053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3124 547048009054 peroxidase; Provisional; Region: PRK15000 547048009055 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 547048009056 dimer interface [polypeptide binding]; other site 547048009057 decamer (pentamer of dimers) interface [polypeptide binding]; other site 547048009058 catalytic triad [active] 547048009059 peroxidatic and resolving cysteines [active] 547048009060 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 547048009061 C factor cell-cell signaling protein; Provisional; Region: PRK09009 547048009062 NADP binding site [chemical binding]; other site 547048009063 homodimer interface [polypeptide binding]; other site 547048009064 active site 547048009065 maltodextrin glucosidase; Provisional; Region: PRK10785 547048009066 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 547048009067 homodimer interface [polypeptide binding]; other site 547048009068 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 547048009069 active site 547048009070 homodimer interface [polypeptide binding]; other site 547048009071 catalytic site [active] 547048009072 putative proline-specific permease; Provisional; Region: proY; PRK10580 547048009073 Spore germination protein; Region: Spore_permease; cl17796 547048009074 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 547048009075 PBP superfamily domain; Region: PBP_like_2; cl17296 547048009076 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 547048009077 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 547048009078 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048009079 putative active site [active] 547048009080 heme pocket [chemical binding]; other site 547048009081 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048009082 dimer interface [polypeptide binding]; other site 547048009083 phosphorylation site [posttranslational modification] 547048009084 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048009085 ATP binding site [chemical binding]; other site 547048009086 Mg2+ binding site [ion binding]; other site 547048009087 G-X-G motif; other site 547048009088 transcriptional regulator PhoB; Provisional; Region: PRK10161 547048009089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048009090 active site 547048009091 phosphorylation site [posttranslational modification] 547048009092 intermolecular recognition site; other site 547048009093 dimerization interface [polypeptide binding]; other site 547048009094 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048009095 DNA binding site [nucleotide binding] 547048009096 exonuclease subunit SbcD; Provisional; Region: PRK10966 547048009097 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 547048009098 active site 547048009099 metal binding site [ion binding]; metal-binding site 547048009100 DNA binding site [nucleotide binding] 547048009101 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 547048009102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048009103 AAA domain; Region: AAA_23; pfam13476 547048009104 Walker A/P-loop; other site 547048009105 ATP binding site [chemical binding]; other site 547048009106 Q-loop/lid; other site 547048009107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048009108 ABC transporter signature motif; other site 547048009109 Walker B; other site 547048009110 D-loop; other site 547048009111 H-loop/switch region; other site 547048009112 fructokinase; Reviewed; Region: PRK09557 547048009113 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048009114 nucleotide binding site [chemical binding]; other site 547048009115 transposase/IS protein; Provisional; Region: PRK09183 547048009116 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048009117 Walker A motif; other site 547048009118 ATP binding site [chemical binding]; other site 547048009119 Walker B motif; other site 547048009120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048009121 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048009122 DNA-binding interface [nucleotide binding]; DNA binding site 547048009123 Integrase core domain; Region: rve; pfam00665 547048009124 recombination associated protein; Reviewed; Region: rdgC; PRK00321 547048009125 hypothetical protein; Provisional; Region: PRK10579 547048009126 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 547048009127 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 547048009128 ADP binding site [chemical binding]; other site 547048009129 magnesium binding site [ion binding]; other site 547048009130 putative shikimate binding site; other site 547048009131 Phospholipid N-methyltransferase [Lipid metabolism]; Region: COG3963 547048009132 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048009133 Flagellar regulator YcgR; Region: YcgR; pfam07317 547048009134 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 547048009135 PilZ domain; Region: PilZ; pfam07238 547048009136 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009137 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 547048009138 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 547048009139 putative catalytic cysteine [active] 547048009140 gamma-glutamyl kinase; Provisional; Region: PRK05429 547048009141 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 547048009142 nucleotide binding site [chemical binding]; other site 547048009143 homotetrameric interface [polypeptide binding]; other site 547048009144 putative phosphate binding site [ion binding]; other site 547048009145 putative allosteric binding site; other site 547048009146 PUA domain; Region: PUA; pfam01472 547048009147 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 547048009148 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 547048009149 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 547048009150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048009151 active site 547048009152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 547048009153 Chitin binding domain; Region: Chitin_bind_3; pfam03067 547048009154 PKD domain; Region: PKD; pfam00801 547048009155 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048009157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048009158 LysR substrate binding domain; Region: LysR_substrate; pfam03466 547048009159 dimerization interface [polypeptide binding]; other site 547048009160 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 547048009161 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 547048009162 metal binding site [ion binding]; metal-binding site 547048009163 dimer interface [polypeptide binding]; other site 547048009164 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 547048009165 active site 547048009166 DNA polymerase IV; Validated; Region: PRK02406 547048009167 DNA binding site [nucleotide binding] 547048009168 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 547048009169 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 547048009170 putative active site [active] 547048009171 catalytic site [active] 547048009172 putative metal binding site [ion binding]; other site 547048009173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 547048009174 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 547048009175 ApbE family; Region: ApbE; pfam02424 547048009176 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 547048009177 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 547048009178 catalytic loop [active] 547048009179 iron binding site [ion binding]; other site 547048009180 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 547048009181 FAD binding pocket [chemical binding]; other site 547048009182 FAD binding motif [chemical binding]; other site 547048009183 phosphate binding motif [ion binding]; other site 547048009184 beta-alpha-beta structure motif; other site 547048009185 NAD binding pocket [chemical binding]; other site 547048009186 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 547048009187 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 547048009188 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 547048009189 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 547048009190 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 547048009191 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 547048009192 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 547048009193 E3 interaction surface; other site 547048009194 lipoyl attachment site [posttranslational modification]; other site 547048009195 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 547048009196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 547048009197 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 547048009198 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 547048009199 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 547048009200 putative active site [active] 547048009201 putative dimer interface [polypeptide binding]; other site 547048009202 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 547048009203 dimer interface [polypeptide binding]; other site 547048009204 active site 547048009205 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 547048009206 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 547048009207 active site 547048009208 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 547048009209 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 547048009210 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 547048009211 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 547048009212 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048009213 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 547048009214 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048009215 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 547048009216 allantoate amidohydrolase; Reviewed; Region: PRK09290 547048009217 active site 547048009218 metal binding site [ion binding]; metal-binding site 547048009219 dimer interface [polypeptide binding]; other site 547048009220 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 547048009221 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048009222 catalytic residue [active] 547048009223 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 547048009224 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 547048009225 Walker A/P-loop; other site 547048009226 ATP binding site [chemical binding]; other site 547048009227 Q-loop/lid; other site 547048009228 ABC transporter signature motif; other site 547048009229 Walker B; other site 547048009230 D-loop; other site 547048009231 H-loop/switch region; other site 547048009232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048009233 dimer interface [polypeptide binding]; other site 547048009234 conserved gate region; other site 547048009235 putative PBP binding loops; other site 547048009236 ABC-ATPase subunit interface; other site 547048009237 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048009238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048009239 dimer interface [polypeptide binding]; other site 547048009240 conserved gate region; other site 547048009241 putative PBP binding loops; other site 547048009242 ABC-ATPase subunit interface; other site 547048009243 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 547048009244 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048009245 substrate binding pocket [chemical binding]; other site 547048009246 membrane-bound complex binding site; other site 547048009247 hinge residues; other site 547048009248 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 547048009249 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 547048009250 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 547048009251 putative active site [active] 547048009252 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 547048009253 amidase; Provisional; Region: PRK09201 547048009254 Amidase; Region: Amidase; cl11426 547048009255 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 547048009256 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048009257 putative substrate translocation pore; other site 547048009258 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 547048009259 putative L-valine exporter; Provisional; Region: PRK10408 547048009260 transcriptional repressor MprA; Provisional; Region: PRK10870 547048009261 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 547048009262 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 547048009263 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048009264 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048009265 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 547048009266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048009267 putative substrate translocation pore; other site 547048009268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048009269 putative methyltransferase; Provisional; Region: PRK10864 547048009270 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 547048009271 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 547048009272 thioredoxin 2; Provisional; Region: PRK10996 547048009273 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 547048009274 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 547048009275 catalytic residues [active] 547048009276 Uncharacterized conserved protein [Function unknown]; Region: COG3148 547048009277 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 547048009278 CoA binding domain; Region: CoA_binding_2; pfam13380 547048009279 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 547048009280 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 547048009281 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 547048009282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048009283 Coenzyme A binding pocket [chemical binding]; other site 547048009284 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 547048009285 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 547048009286 domain interface [polypeptide binding]; other site 547048009287 putative active site [active] 547048009288 catalytic site [active] 547048009289 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 547048009290 domain interface [polypeptide binding]; other site 547048009291 putative active site [active] 547048009292 catalytic site [active] 547048009293 lipoprotein; Provisional; Region: PRK10759 547048009294 protein disaggregation chaperone; Provisional; Region: PRK10865 547048009295 Clp amino terminal domain; Region: Clp_N; pfam02861 547048009296 Clp amino terminal domain; Region: Clp_N; pfam02861 547048009297 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048009298 Walker A motif; other site 547048009299 ATP binding site [chemical binding]; other site 547048009300 Walker B motif; other site 547048009301 arginine finger; other site 547048009302 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048009303 Walker A motif; other site 547048009304 ATP binding site [chemical binding]; other site 547048009305 Walker B motif; other site 547048009306 arginine finger; other site 547048009307 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 547048009308 hypothetical protein; Provisional; Region: PRK10723 547048009309 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 547048009310 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 547048009311 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 547048009312 RNA binding surface [nucleotide binding]; other site 547048009313 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 547048009314 active site 547048009315 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 547048009316 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 547048009317 30S subunit binding site; other site 547048009318 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009319 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 547048009320 Prephenate dehydratase; Region: PDT; pfam00800 547048009321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048009322 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048009323 DNA-binding interface [nucleotide binding]; DNA binding site 547048009324 Integrase core domain; Region: rve; pfam00665 547048009325 transposase/IS protein; Provisional; Region: PRK09183 547048009326 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048009327 Walker A motif; other site 547048009328 ATP binding site [chemical binding]; other site 547048009329 Walker B motif; other site 547048009330 Prephenate dehydratase; Region: PDT; pfam00800 547048009331 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 547048009332 putative L-Phe binding site [chemical binding]; other site 547048009333 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 547048009334 Chorismate mutase type II; Region: CM_2; cl00693 547048009335 prephenate dehydrogenase; Validated; Region: PRK08507 547048009336 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 547048009337 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 547048009338 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 547048009339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048009340 active site 547048009341 phosphorylation site [posttranslational modification] 547048009342 intermolecular recognition site; other site 547048009343 dimerization interface [polypeptide binding]; other site 547048009344 LytTr DNA-binding domain; Region: LytTR; pfam04397 547048009345 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 547048009346 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 547048009347 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 547048009348 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 547048009349 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009350 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 547048009351 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 547048009352 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 547048009353 RimM N-terminal domain; Region: RimM; pfam01782 547048009354 PRC-barrel domain; Region: PRC; pfam05239 547048009355 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 547048009356 signal recognition particle protein; Provisional; Region: PRK10867 547048009357 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 547048009358 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 547048009359 P loop; other site 547048009360 GTP binding site [chemical binding]; other site 547048009361 Signal peptide binding domain; Region: SRP_SPB; pfam02978 547048009362 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 547048009363 hypothetical protein; Provisional; Region: PRK11573 547048009364 Domain of unknown function DUF21; Region: DUF21; pfam01595 547048009365 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 547048009366 Transporter associated domain; Region: CorC_HlyC; smart01091 547048009367 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009368 S-ribosylhomocysteinase; Provisional; Region: PRK02260 547048009369 glutamate--cysteine ligase; Provisional; Region: PRK02107 547048009370 Predicted membrane protein [Function unknown]; Region: COG1238 547048009371 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 547048009372 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048009373 motif II; other site 547048009374 carbon storage regulator; Provisional; Region: PRK01712 547048009375 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 547048009376 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 547048009377 motif 1; other site 547048009378 active site 547048009379 motif 2; other site 547048009380 motif 3; other site 547048009381 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 547048009382 DHHA1 domain; Region: DHHA1; pfam02272 547048009383 recombination regulator RecX; Reviewed; Region: recX; PRK00117 547048009384 recombinase A; Provisional; Region: recA; PRK09354 547048009385 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 547048009386 hexamer interface [polypeptide binding]; other site 547048009387 Walker A motif; other site 547048009388 ATP binding site [chemical binding]; other site 547048009389 Walker B motif; other site 547048009390 hypothetical protein; Validated; Region: PRK03661 547048009391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048009392 putative MFS family transporter protein; Provisional; Region: PRK03633 547048009393 putative substrate translocation pore; other site 547048009394 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 547048009395 MarR family; Region: MarR_2; cl17246 547048009396 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 547048009397 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 547048009398 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 547048009399 hexamer (dimer of trimers) interface [polypeptide binding]; other site 547048009400 substrate binding site [chemical binding]; other site 547048009401 trimer interface [polypeptide binding]; other site 547048009402 Mn binding site [ion binding]; other site 547048009403 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 547048009404 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 547048009405 N- and C-terminal domain interface [polypeptide binding]; other site 547048009406 active site 547048009407 MgATP binding site [chemical binding]; other site 547048009408 catalytic site [active] 547048009409 metal binding site [ion binding]; metal-binding site 547048009410 putative homotetramer interface [polypeptide binding]; other site 547048009411 putative homodimer interface [polypeptide binding]; other site 547048009412 glycerol binding site [chemical binding]; other site 547048009413 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048009414 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048009415 TM-ABC transporter signature motif; other site 547048009416 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048009417 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048009418 Walker A/P-loop; other site 547048009419 ATP binding site [chemical binding]; other site 547048009420 Q-loop/lid; other site 547048009421 ABC transporter signature motif; other site 547048009422 Walker B; other site 547048009423 D-loop; other site 547048009424 H-loop/switch region; other site 547048009425 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048009426 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5618 547048009427 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048009428 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 547048009429 ligand binding site [chemical binding]; other site 547048009430 dimerization interface [polypeptide binding]; other site 547048009431 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 547048009432 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 547048009433 dimer interface [polypeptide binding]; other site 547048009434 active site 547048009435 heme binding site [chemical binding]; other site 547048009436 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 547048009437 Soluble cytochrome b562 [Energy production and conversion]; Region: CybC; COG3783 547048009438 cytochrome b561; Provisional; Region: PRK11513 547048009439 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 547048009440 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 547048009441 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 547048009442 4Fe-4S binding domain; Region: Fer4; cl02805 547048009443 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 547048009444 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 547048009445 putative [Fe4-S4] binding site [ion binding]; other site 547048009446 putative molybdopterin cofactor binding site [chemical binding]; other site 547048009447 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 547048009448 putative molybdopterin cofactor binding site; other site 547048009449 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK13213 547048009450 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 547048009451 intersubunit interface [polypeptide binding]; other site 547048009452 active site 547048009453 Zn2+ binding site [ion binding]; other site 547048009454 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 547048009455 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 547048009456 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 547048009457 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 547048009458 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 547048009459 ligand binding site [chemical binding]; other site 547048009460 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009461 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048009462 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048009463 Walker A/P-loop; other site 547048009464 ATP binding site [chemical binding]; other site 547048009465 Q-loop/lid; other site 547048009466 ABC transporter signature motif; other site 547048009467 Walker B; other site 547048009468 D-loop; other site 547048009469 H-loop/switch region; other site 547048009470 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048009471 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048009472 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048009473 TM-ABC transporter signature motif; other site 547048009474 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048009475 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048009476 TM-ABC transporter signature motif; other site 547048009477 Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]; Region: SgaU; COG3623 547048009478 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 547048009479 AP (apurinic/apyrimidinic) site pocket; other site 547048009480 DNA interaction; other site 547048009481 Metal-binding active site; metal-binding site 547048009482 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 547048009483 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 547048009484 putative N- and C-terminal domain interface [polypeptide binding]; other site 547048009485 putative active site [active] 547048009486 MgATP binding site [chemical binding]; other site 547048009487 catalytic site [active] 547048009488 metal binding site [ion binding]; metal-binding site 547048009489 putative xylulose binding site [chemical binding]; other site 547048009490 fumarate hydratase; Provisional; Region: PRK15389 547048009491 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 547048009492 Fumarase C-terminus; Region: Fumerase_C; pfam05683 547048009493 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 547048009494 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 547048009495 active site 547048009496 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048009497 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 547048009498 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 547048009499 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 547048009500 N-terminal plug; other site 547048009501 ligand-binding site [chemical binding]; other site 547048009502 Haem-binding domain; Region: Haem_bd; pfam14376 547048009503 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 547048009504 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 547048009505 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048009506 substrate binding pocket [chemical binding]; other site 547048009507 membrane-bound complex binding site; other site 547048009508 hinge residues; other site 547048009509 FaeA-like protein; Region: FaeA; pfam04703 547048009510 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 547048009511 dimerization interface [polypeptide binding]; other site 547048009512 putative DNA binding site [nucleotide binding]; other site 547048009513 putative Zn2+ binding site [ion binding]; other site 547048009514 arsenical pump membrane protein; Provisional; Region: PRK15445 547048009515 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 547048009516 transmembrane helices; other site 547048009517 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 547048009518 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 547048009519 DNA binding residues [nucleotide binding] 547048009520 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 547048009521 DAK2 domain; Region: Dak2; pfam02734 547048009522 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 547048009523 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 547048009524 short chain dehydrogenase; Provisional; Region: PRK06841 547048009525 classical (c) SDRs; Region: SDR_c; cd05233 547048009526 NAD(P) binding site [chemical binding]; other site 547048009527 active site 547048009528 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 547048009529 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 547048009530 putative NAD(P) binding site [chemical binding]; other site 547048009531 catalytic Zn binding site [ion binding]; other site 547048009532 structural Zn binding site [ion binding]; other site 547048009533 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 547048009534 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 547048009535 MutS domain I; Region: MutS_I; pfam01624 547048009536 MutS domain II; Region: MutS_II; pfam05188 547048009537 MutS domain III; Region: MutS_III; pfam05192 547048009538 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 547048009539 Walker A/P-loop; other site 547048009540 ATP binding site [chemical binding]; other site 547048009541 Q-loop/lid; other site 547048009542 ABC transporter signature motif; other site 547048009543 Walker B; other site 547048009544 D-loop; other site 547048009545 H-loop/switch region; other site 547048009546 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 547048009547 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 547048009548 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547048009549 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 547048009550 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 547048009551 DNA binding residues [nucleotide binding] 547048009552 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 547048009553 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 547048009554 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048009555 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 547048009556 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048009557 S-adenosylmethionine binding site [chemical binding]; other site 547048009558 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 547048009559 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 547048009560 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 547048009561 Permutation of conserved domain; other site 547048009562 active site 547048009563 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 547048009564 homotrimer interaction site [polypeptide binding]; other site 547048009565 zinc binding site [ion binding]; other site 547048009566 CDP-binding sites; other site 547048009567 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 547048009568 substrate binding site; other site 547048009569 dimer interface; other site 547048009570 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 547048009571 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 547048009572 hypothetical protein; Provisional; Region: PRK10726 547048009573 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 547048009574 ligand-binding site [chemical binding]; other site 547048009575 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 547048009576 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 547048009577 CysD dimerization site [polypeptide binding]; other site 547048009578 G1 box; other site 547048009579 putative GEF interaction site [polypeptide binding]; other site 547048009580 GTP/Mg2+ binding site [chemical binding]; other site 547048009581 Switch I region; other site 547048009582 G2 box; other site 547048009583 G3 box; other site 547048009584 Switch II region; other site 547048009585 G4 box; other site 547048009586 G5 box; other site 547048009587 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 547048009588 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 547048009589 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 547048009590 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 547048009591 Active Sites [active] 547048009592 siroheme synthase; Provisional; Region: cysG; PRK10637 547048009593 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 547048009594 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 547048009595 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 547048009596 active site 547048009597 SAM binding site [chemical binding]; other site 547048009598 homodimer interface [polypeptide binding]; other site 547048009599 YcfA-like protein; Region: YcfA; pfam07927 547048009600 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 547048009601 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048009602 sulfite reductase subunit beta; Provisional; Region: PRK13504 547048009603 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 547048009604 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 547048009605 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 547048009606 Flavodoxin; Region: Flavodoxin_1; pfam00258 547048009607 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 547048009608 FAD binding pocket [chemical binding]; other site 547048009609 FAD binding motif [chemical binding]; other site 547048009610 catalytic residues [active] 547048009611 NAD binding pocket [chemical binding]; other site 547048009612 phosphate binding motif [ion binding]; other site 547048009613 beta-alpha-beta structure motif; other site 547048009614 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 547048009615 active site 547048009616 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 547048009617 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 547048009618 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 547048009619 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 547048009620 E-class dimer interface [polypeptide binding]; other site 547048009621 P-class dimer interface [polypeptide binding]; other site 547048009622 active site 547048009623 Cu2+ binding site [ion binding]; other site 547048009624 Zn2+ binding site [ion binding]; other site 547048009625 enolase; Provisional; Region: eno; PRK00077 547048009626 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 547048009627 dimer interface [polypeptide binding]; other site 547048009628 metal binding site [ion binding]; metal-binding site 547048009629 substrate binding pocket [chemical binding]; other site 547048009630 CTP synthetase; Validated; Region: pyrG; PRK05380 547048009631 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 547048009632 Catalytic site [active] 547048009633 active site 547048009634 UTP binding site [chemical binding]; other site 547048009635 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 547048009636 active site 547048009637 putative oxyanion hole; other site 547048009638 catalytic triad [active] 547048009639 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 547048009640 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 547048009641 homodimer interface [polypeptide binding]; other site 547048009642 metal binding site [ion binding]; metal-binding site 547048009643 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 547048009644 homodimer interface [polypeptide binding]; other site 547048009645 active site 547048009646 putative chemical substrate binding site [chemical binding]; other site 547048009647 metal binding site [ion binding]; metal-binding site 547048009648 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 547048009649 HD domain; Region: HD_4; pfam13328 547048009650 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 547048009651 synthetase active site [active] 547048009652 NTP binding site [chemical binding]; other site 547048009653 metal binding site [ion binding]; metal-binding site 547048009654 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 547048009655 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 547048009656 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 547048009657 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 547048009658 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 547048009659 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048009660 dimerization interface [polypeptide binding]; other site 547048009661 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048009662 dimer interface [polypeptide binding]; other site 547048009663 phosphorylation site [posttranslational modification] 547048009664 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048009665 ATP binding site [chemical binding]; other site 547048009666 Mg2+ binding site [ion binding]; other site 547048009667 G-X-G motif; other site 547048009668 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 547048009669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048009670 active site 547048009671 phosphorylation site [posttranslational modification] 547048009672 intermolecular recognition site; other site 547048009673 dimerization interface [polypeptide binding]; other site 547048009674 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 547048009675 putative binding surface; other site 547048009676 active site 547048009677 serine endoprotease; Provisional; Region: PRK10942 547048009678 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 547048009679 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 547048009680 protein binding site [polypeptide binding]; other site 547048009681 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 547048009682 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 547048009683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547048009684 Zn2+ binding site [ion binding]; other site 547048009685 Mg2+ binding site [ion binding]; other site 547048009686 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 547048009687 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 547048009688 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 547048009689 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 547048009690 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 547048009691 cobalamin binding residues [chemical binding]; other site 547048009692 putative BtuC binding residues; other site 547048009693 dimer interface [polypeptide binding]; other site 547048009694 hypothetical protein; Provisional; Region: PRK10578 547048009695 UPF0126 domain; Region: UPF0126; pfam03458 547048009696 UPF0126 domain; Region: UPF0126; pfam03458 547048009697 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 547048009698 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 547048009699 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 547048009700 inhibitor-cofactor binding pocket; inhibition site 547048009701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048009702 catalytic residue [active] 547048009703 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048009704 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 547048009705 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048009706 ABC-ATPase subunit interface; other site 547048009707 dimer interface [polypeptide binding]; other site 547048009708 putative PBP binding regions; other site 547048009709 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 547048009710 ABC-ATPase subunit interface; other site 547048009711 dimer interface [polypeptide binding]; other site 547048009712 putative PBP binding regions; other site 547048009713 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 547048009714 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 547048009715 siderophore binding site; other site 547048009716 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 547048009717 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048009718 Walker A/P-loop; other site 547048009719 ATP binding site [chemical binding]; other site 547048009720 Q-loop/lid; other site 547048009721 ABC transporter signature motif; other site 547048009722 Walker B; other site 547048009723 D-loop; other site 547048009724 H-loop/switch region; other site 547048009725 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 547048009726 Transglycosylase; Region: Transgly; pfam00912 547048009727 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 547048009728 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 547048009729 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048009730 ATP binding site [chemical binding]; other site 547048009731 putative Mg++ binding site [ion binding]; other site 547048009732 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048009733 nucleotide binding region [chemical binding]; other site 547048009734 ATP-binding site [chemical binding]; other site 547048009735 Helicase associated domain (HA2); Region: HA2; pfam04408 547048009736 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 547048009737 2'-5' RNA ligase; Provisional; Region: PRK15124 547048009738 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 547048009739 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 547048009740 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 547048009741 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 547048009742 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 547048009743 active site 547048009744 nucleotide binding site [chemical binding]; other site 547048009745 HIGH motif; other site 547048009746 KMSKS motif; other site 547048009747 poly(A) polymerase; Region: pcnB; TIGR01942 547048009748 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 547048009749 active site 547048009750 NTP binding site [chemical binding]; other site 547048009751 metal binding triad [ion binding]; metal-binding site 547048009752 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 547048009753 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 547048009754 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 547048009755 catalytic center binding site [active] 547048009756 ATP binding site [chemical binding]; other site 547048009757 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 547048009758 oligomerization interface [polypeptide binding]; other site 547048009759 active site 547048009760 metal binding site [ion binding]; metal-binding site 547048009761 pantoate--beta-alanine ligase; Region: panC; TIGR00018 547048009762 Pantoate-beta-alanine ligase; Region: PanC; cd00560 547048009763 active site 547048009764 ATP-binding site [chemical binding]; other site 547048009765 pantoate-binding site; other site 547048009766 HXXH motif; other site 547048009767 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 547048009768 tetramerization interface [polypeptide binding]; other site 547048009769 active site 547048009770 inner membrane transport permease; Provisional; Region: PRK15066 547048009771 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 547048009772 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 547048009773 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 547048009774 Walker A/P-loop; other site 547048009775 ATP binding site [chemical binding]; other site 547048009776 Q-loop/lid; other site 547048009777 ABC transporter signature motif; other site 547048009778 Walker B; other site 547048009779 D-loop; other site 547048009780 H-loop/switch region; other site 547048009781 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 547048009782 active site clefts [active] 547048009783 zinc binding site [ion binding]; other site 547048009784 dimer interface [polypeptide binding]; other site 547048009785 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048009786 active site 547048009787 multicopper oxidase; Provisional; Region: PRK10965 547048009788 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 547048009789 Multicopper oxidase; Region: Cu-oxidase; pfam00394 547048009790 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 547048009791 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 547048009792 spermidine synthase; Provisional; Region: PRK00811 547048009793 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048009794 S-adenosylmethionine binding site [chemical binding]; other site 547048009795 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 547048009796 aromatic amino acid exporter; Provisional; Region: PRK11689 547048009797 EamA-like transporter family; Region: EamA; cl17759 547048009798 hypothetical protein; Provisional; Region: PRK05248 547048009799 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 547048009800 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 547048009801 substrate binding site [chemical binding]; other site 547048009802 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 547048009803 substrate binding site [chemical binding]; other site 547048009804 ligand binding site [chemical binding]; other site 547048009805 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009806 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 547048009807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048009808 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048009809 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547048009810 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 547048009811 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 547048009812 E3 interaction surface; other site 547048009813 lipoyl attachment site [posttranslational modification]; other site 547048009814 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 547048009815 E3 interaction surface; other site 547048009816 lipoyl attachment site [posttranslational modification]; other site 547048009817 e3 binding domain; Region: E3_binding; pfam02817 547048009818 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 547048009819 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 547048009820 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 547048009821 dimer interface [polypeptide binding]; other site 547048009822 TPP-binding site [chemical binding]; other site 547048009823 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 547048009824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048009825 DNA-binding site [nucleotide binding]; DNA binding site 547048009826 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 547048009827 aromatic amino acid transporter; Provisional; Region: PRK10238 547048009828 potential frameshift: common BLAST hit: gi|294505128|ref|YP_003569190.1| putative membrane-bound sensory transducer in beta-lactamase 547048009829 regulatory protein AmpE; Provisional; Region: PRK10987 547048009830 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 547048009831 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 547048009832 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 547048009833 amidase catalytic site [active] 547048009834 Zn binding residues [ion binding]; other site 547048009835 substrate binding site [chemical binding]; other site 547048009836 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 547048009837 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 547048009838 dimerization interface [polypeptide binding]; other site 547048009839 active site 547048009840 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 547048009841 putative major pilin subunit; Provisional; Region: PRK10574 547048009842 hypothetical protein; Provisional; Region: PRK10436 547048009843 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 547048009844 Walker A motif; other site 547048009845 ATP binding site [chemical binding]; other site 547048009846 Walker B motif; other site 547048009847 type IV pilin biogenesis protein; Provisional; Region: PRK10573 547048009848 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547048009849 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547048009850 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 547048009851 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 547048009852 active site 547048009853 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 547048009854 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 547048009855 CoA-binding site [chemical binding]; other site 547048009856 ATP-binding [chemical binding]; other site 547048009857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 547048009858 DNA gyrase inhibitor; Reviewed; Region: PRK00418 547048009859 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048009860 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048009861 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048009862 DNA-binding interface [nucleotide binding]; DNA binding site 547048009863 Integrase core domain; Region: rve; pfam00665 547048009864 transposase/IS protein; Provisional; Region: PRK09183 547048009865 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048009866 Walker A motif; other site 547048009867 ATP binding site [chemical binding]; other site 547048009868 Walker B motif; other site 547048009869 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 547048009870 Mg2+ binding site [ion binding]; other site 547048009871 G-X-G motif; other site 547048009872 Uncharacterized conserved protein [Function unknown]; Region: COG1479 547048009873 Protein of unknown function DUF262; Region: DUF262; pfam03235 547048009874 Protein of unknown function DUF262; Region: DUF262; pfam03235 547048009875 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 547048009876 integrase; Provisional; Region: PRK09692 547048009877 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 547048009878 active site 547048009879 Int/Topo IB signature motif; other site 547048009880 multifunctional aminopeptidase A; Provisional; Region: PRK00913 547048009881 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 547048009882 interface (dimer of trimers) [polypeptide binding]; other site 547048009883 Substrate-binding/catalytic site; other site 547048009884 Zn-binding sites [ion binding]; other site 547048009885 DNA polymerase III subunit chi; Validated; Region: PRK05728 547048009886 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 547048009887 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 547048009888 HIGH motif; other site 547048009889 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 547048009890 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 547048009891 active site 547048009892 KMSKS motif; other site 547048009893 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 547048009894 tRNA binding surface [nucleotide binding]; other site 547048009895 anticodon binding site; other site 547048009896 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 547048009897 RNase E inhibitor protein; Provisional; Region: PRK11191 547048009898 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 547048009899 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 547048009900 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 547048009901 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 547048009902 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 547048009903 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048009904 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 547048009905 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 547048009906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 547048009907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048009908 dimer interface [polypeptide binding]; other site 547048009909 conserved gate region; other site 547048009910 putative PBP binding loops; other site 547048009911 ABC-ATPase subunit interface; other site 547048009912 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 547048009913 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 547048009914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048009915 dimer interface [polypeptide binding]; other site 547048009916 conserved gate region; other site 547048009917 ABC-ATPase subunit interface; other site 547048009918 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048009919 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 547048009920 Walker A/P-loop; other site 547048009921 ATP binding site [chemical binding]; other site 547048009922 Q-loop/lid; other site 547048009923 ABC transporter signature motif; other site 547048009924 Walker B; other site 547048009925 D-loop; other site 547048009926 H-loop/switch region; other site 547048009927 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 547048009928 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048009929 Walker A/P-loop; other site 547048009930 ATP binding site [chemical binding]; other site 547048009931 Q-loop/lid; other site 547048009932 ABC transporter signature motif; other site 547048009933 Walker B; other site 547048009934 D-loop; other site 547048009935 H-loop/switch region; other site 547048009936 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 547048009937 ATP cone domain; Region: ATP-cone; pfam03477 547048009938 Class III ribonucleotide reductase; Region: RNR_III; cd01675 547048009939 effector binding site; other site 547048009940 active site 547048009941 Zn binding site [ion binding]; other site 547048009942 glycine loop; other site 547048009943 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 547048009944 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 547048009945 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 547048009946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048009947 DNA-binding site [nucleotide binding]; DNA binding site 547048009948 UTRA domain; Region: UTRA; pfam07702 547048009949 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnG; COG3624 547048009950 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 547048009951 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 547048009952 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 547048009953 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 547048009954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048009955 Walker A/P-loop; other site 547048009956 ATP binding site [chemical binding]; other site 547048009957 Q-loop/lid; other site 547048009958 ABC transporter signature motif; other site 547048009959 Walker B; other site 547048009960 D-loop; other site 547048009961 H-loop/switch region; other site 547048009962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 547048009963 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 547048009964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048009965 Walker A/P-loop; other site 547048009966 ATP binding site [chemical binding]; other site 547048009967 Q-loop/lid; other site 547048009968 ABC transporter signature motif; other site 547048009969 Walker B; other site 547048009970 D-loop; other site 547048009971 H-loop/switch region; other site 547048009972 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 547048009973 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 547048009974 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 547048009975 active site 547048009976 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 547048009977 Guanylate kinase; Region: Guanylate_kin; pfam00625 547048009978 active site 547048009979 putative hydrolase; Provisional; Region: PRK02113 547048009980 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 547048009981 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 547048009982 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 547048009983 NAD binding site [chemical binding]; other site 547048009984 active site 547048009985 hypothetical protein; Provisional; Region: PRK03467 547048009986 Alginate lyase; Region: Alginate_lyase; pfam05426 547048009987 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 547048009988 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048009989 Walker A/P-loop; other site 547048009990 ATP binding site [chemical binding]; other site 547048009991 Q-loop/lid; other site 547048009992 ABC transporter signature motif; other site 547048009993 Walker B; other site 547048009994 D-loop; other site 547048009995 H-loop/switch region; other site 547048009996 TOBE domain; Region: TOBE_2; pfam08402 547048009997 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048009998 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048009999 dimer interface [polypeptide binding]; other site 547048010000 conserved gate region; other site 547048010001 putative PBP binding loops; other site 547048010002 ABC-ATPase subunit interface; other site 547048010003 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 547048010004 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048010005 dimer interface [polypeptide binding]; other site 547048010006 putative PBP binding loops; other site 547048010007 ABC-ATPase subunit interface; other site 547048010008 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048010009 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 547048010010 Alginate lyase; Region: Alginate_lyase; pfam05426 547048010011 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 547048010012 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 547048010013 GIY-YIG motif/motif A; other site 547048010014 putative active site [active] 547048010015 putative metal binding site [ion binding]; other site 547048010016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048010017 Coenzyme A binding pocket [chemical binding]; other site 547048010018 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 547048010019 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 547048010020 Peptidase family U32; Region: Peptidase_U32; pfam01136 547048010021 putative protease; Provisional; Region: PRK15447 547048010022 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 547048010023 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 547048010024 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 547048010025 Protein export membrane protein; Region: SecD_SecF; cl14618 547048010026 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 547048010027 hypothetical protein; Provisional; Region: PRK10508 547048010028 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048010030 non-specific DNA binding site [nucleotide binding]; other site 547048010031 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 547048010032 salt bridge; other site 547048010033 sequence-specific DNA binding site [nucleotide binding]; other site 547048010034 Phage-related protein [Function unknown]; Region: COG4679 547048010035 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 547048010036 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 547048010037 ATP binding site [chemical binding]; other site 547048010038 Mg++ binding site [ion binding]; other site 547048010039 motif III; other site 547048010040 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048010041 nucleotide binding region [chemical binding]; other site 547048010042 ATP-binding site [chemical binding]; other site 547048010043 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 547048010044 putative RNA binding site [nucleotide binding]; other site 547048010045 Cold shock protein DEAD box A; Region: DEADboxA; pfam12343 547048010046 lipoprotein NlpI; Provisional; Region: PRK11189 547048010047 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 547048010048 binding surface 547048010049 TPR motif; other site 547048010050 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 547048010051 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 547048010052 RNase E interface [polypeptide binding]; other site 547048010053 trimer interface [polypeptide binding]; other site 547048010054 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 547048010055 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 547048010056 RNase E interface [polypeptide binding]; other site 547048010057 trimer interface [polypeptide binding]; other site 547048010058 active site 547048010059 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 547048010060 putative nucleic acid binding region [nucleotide binding]; other site 547048010061 G-X-X-G motif; other site 547048010062 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 547048010063 RNA binding site [nucleotide binding]; other site 547048010064 domain interface; other site 547048010065 putative transposase OrfB; Reviewed; Region: PHA02517 547048010066 HTH-like domain; Region: HTH_21; pfam13276 547048010067 Integrase core domain; Region: rve; pfam00665 547048010068 Integrase core domain; Region: rve_2; pfam13333 547048010069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048010070 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048010071 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048010072 flagellin; Validated; Region: PRK06819 547048010073 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547048010074 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547048010075 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048010076 DNA binding site [nucleotide binding] 547048010077 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 547048010078 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 547048010079 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 547048010080 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048010081 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048010082 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 547048010083 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 547048010084 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 547048010085 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 547048010086 Flagellar L-ring protein; Region: FlgH; pfam02107 547048010087 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 547048010088 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048010089 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048010090 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 547048010091 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048010092 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 547048010093 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 547048010094 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 547048010095 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 547048010096 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 547048010097 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048010098 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 547048010099 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 547048010100 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 547048010101 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 547048010102 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 547048010103 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 547048010104 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 547048010105 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 547048010106 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 547048010107 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 547048010108 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 547048010109 FlgN protein; Region: FlgN; pfam05130 547048010110 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 547048010111 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07196 547048010112 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 547048010113 Walker A motif; other site 547048010114 ATP binding site [chemical binding]; other site 547048010115 Walker B motif; other site 547048010116 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 547048010117 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 547048010118 Flagellar assembly protein FliH; Region: FliH; pfam02108 547048010119 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 547048010120 MgtE intracellular N domain; Region: MgtE_N; smart00924 547048010121 FliG C-terminal domain; Region: FliG_C; pfam01706 547048010122 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 547048010123 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 547048010124 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 547048010125 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 547048010126 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 547048010127 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048010128 Walker A motif; other site 547048010129 ATP binding site [chemical binding]; other site 547048010130 Walker B motif; other site 547048010131 arginine finger; other site 547048010132 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547048010133 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 547048010134 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 547048010135 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 547048010136 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 547048010137 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 547048010138 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 547048010139 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 547048010140 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 547048010141 FHIPEP family; Region: FHIPEP; pfam00771 547048010142 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 547048010143 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 547048010144 ABC-type Fe2+-enterobactin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG4592 547048010145 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 547048010146 siderophore binding site; other site 547048010147 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 547048010148 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048010149 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048010150 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048010151 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 547048010152 PapC N-terminal domain; Region: PapC_N; pfam13954 547048010153 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048010154 PapC C-terminal domain; Region: PapC_C; pfam13953 547048010155 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010156 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 547048010157 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 547048010158 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 547048010159 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547048010160 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 547048010161 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 547048010162 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 547048010163 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 547048010164 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 547048010165 ATP binding site [chemical binding]; other site 547048010166 Walker A motif; other site 547048010167 hexamer interface [polypeptide binding]; other site 547048010168 Walker B motif; other site 547048010169 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 547048010170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 547048010171 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 547048010172 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 547048010173 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 547048010174 binding surface 547048010175 TPR motif; other site 547048010176 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 547048010177 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 547048010178 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 547048010179 metal ion-dependent adhesion site (MIDAS); other site 547048010180 biopolymer transport protein ExbD; Provisional; Region: PRK11267 547048010181 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 547048010182 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 547048010183 cystathionine beta-lyase; Provisional; Region: PRK08114 547048010184 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 547048010185 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048010186 catalytic residue [active] 547048010187 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 547048010188 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 547048010189 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 547048010190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048010191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 547048010192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048010193 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 547048010194 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 547048010195 dimer interface [polypeptide binding]; other site 547048010196 active site 547048010197 metal binding site [ion binding]; metal-binding site 547048010198 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 547048010199 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 547048010200 active site 547048010201 catalytic tetrad [active] 547048010202 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 547048010203 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 547048010204 FtsI repressor; Provisional; Region: PRK10883 547048010205 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 547048010206 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 547048010207 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 547048010208 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 547048010209 putative acyl-acceptor binding pocket; other site 547048010210 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 547048010211 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 547048010212 CAP-like domain; other site 547048010213 active site 547048010214 primary dimer interface [polypeptide binding]; other site 547048010215 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 547048010216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048010217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048010218 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048010219 dimerization interface [polypeptide binding]; other site 547048010220 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 547048010221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048010222 ATP binding site [chemical binding]; other site 547048010223 Mg2+ binding site [ion binding]; other site 547048010224 G-X-G motif; other site 547048010225 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 547048010226 anchoring element; other site 547048010227 dimer interface [polypeptide binding]; other site 547048010228 ATP binding site [chemical binding]; other site 547048010229 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 547048010230 active site 547048010231 metal binding site [ion binding]; metal-binding site 547048010232 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 547048010233 esterase YqiA; Provisional; Region: PRK11071 547048010234 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 547048010235 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 547048010236 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 547048010237 active site 547048010238 metal binding site [ion binding]; metal-binding site 547048010239 hexamer interface [polypeptide binding]; other site 547048010240 putative dehydrogenase; Provisional; Region: PRK11039 547048010241 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 547048010242 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 547048010243 dimer interface [polypeptide binding]; other site 547048010244 ADP-ribose binding site [chemical binding]; other site 547048010245 active site 547048010246 nudix motif; other site 547048010247 metal binding site [ion binding]; metal-binding site 547048010248 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 547048010249 hypothetical protein; Provisional; Region: PRK11653 547048010250 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 547048010251 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 547048010252 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 547048010253 putative active site [active] 547048010254 metal binding site [ion binding]; metal-binding site 547048010255 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 547048010256 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 547048010257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 547048010258 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010259 putative transporter; Provisional; Region: PRK11021 547048010260 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 547048010261 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 547048010262 putative ribose interaction site [chemical binding]; other site 547048010263 putative ADP binding site [chemical binding]; other site 547048010264 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 547048010265 active site 547048010266 nucleotide binding site [chemical binding]; other site 547048010267 HIGH motif; other site 547048010268 KMSKS motif; other site 547048010269 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 547048010270 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 547048010271 metal binding triad; other site 547048010272 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 547048010273 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 547048010274 metal binding triad; other site 547048010275 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 547048010276 Uncharacterized conserved protein [Function unknown]; Region: COG3025 547048010277 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 547048010278 putative active site [active] 547048010279 putative metal binding residues [ion binding]; other site 547048010280 signature motif; other site 547048010281 putative triphosphate binding site [ion binding]; other site 547048010282 SH3 domain-containing protein; Provisional; Region: PRK10884 547048010283 Bacterial SH3 domain homologues; Region: SH3b; smart00287 547048010284 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 547048010285 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 547048010286 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 547048010287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 547048010288 Zn2+ binding site [ion binding]; other site 547048010289 Mg2+ binding site [ion binding]; other site 547048010290 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 547048010291 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 547048010292 homooctamer interface [polypeptide binding]; other site 547048010293 active site 547048010294 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 547048010295 UGMP family protein; Validated; Region: PRK09604 547048010296 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 547048010297 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 547048010298 DNA primase; Validated; Region: dnaG; PRK05667 547048010299 CHC2 zinc finger; Region: zf-CHC2; pfam01807 547048010300 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 547048010301 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 547048010302 active site 547048010303 metal binding site [ion binding]; metal-binding site 547048010304 interdomain interaction site; other site 547048010305 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 547048010306 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 547048010307 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 547048010308 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 547048010309 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 547048010310 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 547048010311 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 547048010312 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 547048010313 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 547048010314 DNA binding residues [nucleotide binding] 547048010315 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: XtmA; COG3728 547048010316 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 547048010317 active site 547048010318 Fic/DOC family; Region: Fic; cl00960 547048010319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048010320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048010321 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 547048010322 putative effector binding pocket; other site 547048010323 putative dimerization interface [polypeptide binding]; other site 547048010324 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 547048010325 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 547048010326 catalytic residues [active] 547048010327 putative monooxygenase; Provisional; Region: PRK11118 547048010328 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 547048010329 homotrimer interaction site [polypeptide binding]; other site 547048010330 putative active site [active] 547048010331 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 547048010332 homotrimer interaction site [polypeptide binding]; other site 547048010333 putative active site [active] 547048010334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 547048010335 YheO-like PAS domain; Region: PAS_6; pfam08348 547048010336 HTH domain; Region: HTH_22; pfam13309 547048010337 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 547048010338 putative hydrophobic ligand binding site [chemical binding]; other site 547048010339 protein interface [polypeptide binding]; other site 547048010340 gate; other site 547048010341 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 547048010342 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048010343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048010344 homodimer interface [polypeptide binding]; other site 547048010345 catalytic residue [active] 547048010346 multidrug resistance protein MdtN; Provisional; Region: PRK10476 547048010347 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048010348 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048010349 Predicted membrane protein [Function unknown]; Region: COG1289 547048010350 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 547048010351 Outer membrane efflux protein; Region: OEP; pfam02321 547048010352 Outer membrane efflux protein; Region: OEP; pfam02321 547048010353 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 547048010354 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 547048010355 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 547048010356 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 547048010357 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048010358 dimer interface [polypeptide binding]; other site 547048010359 conserved gate region; other site 547048010360 putative PBP binding loops; other site 547048010361 ABC-ATPase subunit interface; other site 547048010362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048010363 dimer interface [polypeptide binding]; other site 547048010364 conserved gate region; other site 547048010365 putative PBP binding loops; other site 547048010366 ABC-ATPase subunit interface; other site 547048010367 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 547048010368 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 547048010369 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048010370 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048010371 DNA binding site [nucleotide binding] 547048010372 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 547048010373 ligand binding site [chemical binding]; other site 547048010374 dimerization interface [polypeptide binding]; other site 547048010375 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 547048010376 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 547048010377 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 547048010378 Walker A/P-loop; other site 547048010379 ATP binding site [chemical binding]; other site 547048010380 Q-loop/lid; other site 547048010381 ABC transporter signature motif; other site 547048010382 Walker B; other site 547048010383 D-loop; other site 547048010384 H-loop/switch region; other site 547048010385 TOBE domain; Region: TOBE_2; pfam08402 547048010386 Putative glucoamylase; Region: Glycoamylase; pfam10091 547048010387 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048010388 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048010389 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 547048010390 V-type ATP synthase subunit E; Provisional; Region: PRK02292 547048010391 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048010392 haemagglutination activity domain; Region: Haemagg_act; pfam05860 547048010393 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 547048010394 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048010395 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048010396 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 547048010397 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 547048010398 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 547048010399 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 547048010400 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 547048010401 metal ion-dependent adhesion site (MIDAS); other site 547048010402 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 547048010403 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 547048010404 putative metal binding site [ion binding]; other site 547048010405 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 547048010406 metal ion-dependent adhesion site (MIDAS); other site 547048010407 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 547048010408 metal ion-dependent adhesion site (MIDAS); other site 547048010409 Protein phosphatase 2C; Region: PP2C_2; pfam13672 547048010410 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 547048010411 substrate binding site [chemical binding]; other site 547048010412 activation loop (A-loop); other site 547048010413 acid-resistance membrane protein; Provisional; Region: PRK10209 547048010414 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 547048010415 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 547048010416 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 547048010417 active site 547048010418 FMN binding site [chemical binding]; other site 547048010419 2,4-decadienoyl-CoA binding site; other site 547048010420 catalytic residue [active] 547048010421 4Fe-4S cluster binding site [ion binding]; other site 547048010422 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 547048010423 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 547048010424 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048010425 S-adenosylmethionine binding site [chemical binding]; other site 547048010426 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 547048010427 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 547048010428 Autotransporter beta-domain; Region: Autotransporter; pfam03797 547048010429 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 547048010430 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547048010431 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048010432 serine/threonine transporter SstT; Provisional; Region: PRK13628 547048010433 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 547048010434 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010435 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 547048010436 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 547048010437 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 547048010438 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 547048010439 active site 547048010440 metal binding site [ion binding]; metal-binding site 547048010441 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 547048010442 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 547048010443 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048010444 S-adenosylmethionine binding site [chemical binding]; other site 547048010445 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 547048010446 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 547048010447 SurA N-terminal domain; Region: SurA_N; pfam09312 547048010448 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 547048010449 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 547048010450 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 547048010451 OstA-like protein; Region: OstA; pfam03968 547048010452 Organic solvent tolerance protein; Region: OstA_C; pfam04453 547048010453 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 547048010454 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 547048010455 putative metal binding site [ion binding]; other site 547048010456 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 547048010457 HSP70 interaction site [polypeptide binding]; other site 547048010458 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 547048010459 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 547048010460 active site 547048010461 Uncharacterized conserved protein [Function unknown]; Region: COG5419 547048010462 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048010463 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048010464 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 547048010465 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 547048010466 Protein of unknown function (DUF877); Region: DUF877; pfam05943 547048010467 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 547048010468 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 547048010469 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 547048010470 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 547048010471 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 547048010472 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 547048010473 Clp amino terminal domain; Region: Clp_N; pfam02861 547048010474 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048010475 Walker A motif; other site 547048010476 ATP binding site [chemical binding]; other site 547048010477 Walker B motif; other site 547048010478 arginine finger; other site 547048010479 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048010480 Walker A motif; other site 547048010481 ATP binding site [chemical binding]; other site 547048010482 Walker B motif; other site 547048010483 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547048010484 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 547048010485 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048010486 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048010487 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 547048010488 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 547048010489 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 547048010490 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 547048010491 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 547048010492 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 547048010493 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 547048010494 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 547048010495 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 547048010496 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 547048010497 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 547048010498 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 547048010499 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 547048010500 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 547048010501 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 547048010502 G1 box; other site 547048010503 GTP/Mg2+ binding site [chemical binding]; other site 547048010504 G2 box; other site 547048010505 G3 box; other site 547048010506 Switch II region; other site 547048010507 G4 box; other site 547048010508 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 547048010509 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 547048010510 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010511 ATP-dependent helicase HepA; Validated; Region: PRK04914 547048010512 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048010513 ATP binding site [chemical binding]; other site 547048010514 putative Mg++ binding site [ion binding]; other site 547048010515 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048010516 nucleotide binding region [chemical binding]; other site 547048010517 ATP-binding site [chemical binding]; other site 547048010518 DNA polymerase II; Reviewed; Region: PRK05762 547048010519 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 547048010520 active site 547048010521 catalytic site [active] 547048010522 substrate binding site [chemical binding]; other site 547048010523 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 547048010524 active site 547048010525 metal-binding site 547048010526 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 547048010527 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 547048010528 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 547048010529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048010530 Walker A/P-loop; other site 547048010531 ATP binding site [chemical binding]; other site 547048010532 Q-loop/lid; other site 547048010533 ABC transporter signature motif; other site 547048010534 Walker B; other site 547048010535 D-loop; other site 547048010536 H-loop/switch region; other site 547048010537 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 547048010538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048010539 dimer interface [polypeptide binding]; other site 547048010540 conserved gate region; other site 547048010541 putative PBP binding loops; other site 547048010542 ABC-ATPase subunit interface; other site 547048010543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048010544 dimer interface [polypeptide binding]; other site 547048010545 conserved gate region; other site 547048010546 putative PBP binding loops; other site 547048010547 ABC-ATPase subunit interface; other site 547048010548 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 547048010549 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 547048010550 transcriptional regulator SgrR; Provisional; Region: PRK13626 547048010551 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 547048010552 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 547048010553 sugar efflux transporter; Region: 2A0120; TIGR00899 547048010554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048010555 putative substrate translocation pore; other site 547048010556 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 547048010557 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 547048010558 substrate binding site [chemical binding]; other site 547048010559 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 547048010560 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 547048010561 substrate binding site [chemical binding]; other site 547048010562 ligand binding site [chemical binding]; other site 547048010563 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 547048010564 tartrate dehydrogenase; Region: TTC; TIGR02089 547048010565 2-isopropylmalate synthase; Validated; Region: PRK00915 547048010566 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 547048010567 active site 547048010568 catalytic residues [active] 547048010569 metal binding site [ion binding]; metal-binding site 547048010570 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 547048010571 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010572 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 547048010573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048010574 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 547048010575 putative substrate binding pocket [chemical binding]; other site 547048010576 putative dimerization interface [polypeptide binding]; other site 547048010577 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 547048010578 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 547048010579 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 547048010580 acyl-activating enzyme (AAE) consensus motif; other site 547048010581 acyl-activating enzyme (AAE) consensus motif; other site 547048010582 putative AMP binding site [chemical binding]; other site 547048010583 putative active site [active] 547048010584 putative CoA binding site [chemical binding]; other site 547048010585 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 547048010586 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 547048010587 PYR/PP interface [polypeptide binding]; other site 547048010588 dimer interface [polypeptide binding]; other site 547048010589 TPP binding site [chemical binding]; other site 547048010590 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 547048010591 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 547048010592 TPP-binding site [chemical binding]; other site 547048010593 dimer interface [polypeptide binding]; other site 547048010594 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 547048010595 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 547048010596 putative valine binding site [chemical binding]; other site 547048010597 dimer interface [polypeptide binding]; other site 547048010598 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 547048010599 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010600 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 547048010601 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048010602 DNA binding site [nucleotide binding] 547048010603 domain linker motif; other site 547048010604 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 547048010605 dimerization interface [polypeptide binding]; other site 547048010606 ligand binding site [chemical binding]; other site 547048010607 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 547048010608 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010609 cell division protein MraZ; Reviewed; Region: PRK00326 547048010610 MraZ protein; Region: MraZ; pfam02381 547048010611 MraZ protein; Region: MraZ; pfam02381 547048010612 MraW methylase family; Region: Methyltransf_5; pfam01795 547048010613 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 547048010614 cell division protein FtsL; Provisional; Region: PRK10772 547048010615 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 547048010616 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 547048010617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 547048010618 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 547048010619 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547048010620 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547048010621 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048010622 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 547048010623 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547048010624 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547048010625 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048010626 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 547048010627 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 547048010628 Mg++ binding site [ion binding]; other site 547048010629 putative catalytic motif [active] 547048010630 putative substrate binding site [chemical binding]; other site 547048010631 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 547048010632 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 547048010633 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547048010634 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048010635 cell division protein FtsW; Provisional; Region: PRK10774 547048010636 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 547048010637 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 547048010638 active site 547048010639 homodimer interface [polypeptide binding]; other site 547048010640 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 547048010641 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 547048010642 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 547048010643 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 547048010644 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 547048010645 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 547048010646 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 547048010647 cell division protein FtsQ; Provisional; Region: PRK10775 547048010648 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 547048010649 Cell division protein FtsQ; Region: FtsQ; pfam03799 547048010650 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 547048010651 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 547048010652 Cell division protein FtsA; Region: FtsA; pfam14450 547048010653 cell division protein FtsZ; Validated; Region: PRK09330 547048010654 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 547048010655 nucleotide binding site [chemical binding]; other site 547048010656 SulA interaction site; other site 547048010657 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 547048010658 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 547048010659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4701 547048010660 SecA regulator SecM; Provisional; Region: PRK02943 547048010661 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 547048010662 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 547048010663 SEC-C motif; Region: SEC-C; pfam02810 547048010664 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010665 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 547048010666 active site 547048010667 8-oxo-dGMP binding site [chemical binding]; other site 547048010668 nudix motif; other site 547048010669 metal binding site [ion binding]; metal-binding site 547048010670 transposase/IS protein; Provisional; Region: PRK09183 547048010671 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048010672 Walker A motif; other site 547048010673 ATP binding site [chemical binding]; other site 547048010674 Walker B motif; other site 547048010675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048010676 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048010677 DNA-binding interface [nucleotide binding]; DNA binding site 547048010678 Integrase core domain; Region: rve; pfam00665 547048010679 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 547048010680 Predicted membrane protein [Function unknown]; Region: COG2259 547048010681 YqjK-like protein; Region: YqjK; pfam13997 547048010682 Predicted membrane protein [Function unknown]; Region: COG5393 547048010683 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 547048010684 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 547048010685 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 547048010686 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 547048010687 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 547048010688 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 547048010689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048010690 DNA-binding site [nucleotide binding]; DNA binding site 547048010691 FCD domain; Region: FCD; pfam07729 547048010692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048010693 D-galactonate transporter; Region: 2A0114; TIGR00893 547048010694 putative substrate translocation pore; other site 547048010695 Glucuronate isomerase; Region: UxaC; pfam02614 547048010696 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 547048010697 altronate oxidoreductase; Provisional; Region: PRK03643 547048010698 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 547048010699 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 547048010700 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 547048010701 galactarate dehydratase; Region: galactar-dH20; TIGR03248 547048010702 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 547048010703 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 547048010704 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010705 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 547048010706 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 547048010707 folate binding site [chemical binding]; other site 547048010708 NADP+ binding site [chemical binding]; other site 547048010709 hypothetical protein; Provisional; Region: PRK09917 547048010710 Uncharacterized conserved protein [Function unknown]; Region: COG2966 547048010711 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 547048010712 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 547048010713 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 547048010714 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547048010715 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 547048010716 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 547048010717 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547048010718 ATP-grasp domain; Region: ATP-grasp_4; cl17255 547048010719 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 547048010720 IMP binding site; other site 547048010721 dimer interface [polypeptide binding]; other site 547048010722 interdomain contacts; other site 547048010723 partial ornithine binding site; other site 547048010724 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 547048010725 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 547048010726 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 547048010727 catalytic site [active] 547048010728 subunit interface [polypeptide binding]; other site 547048010729 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 547048010730 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 547048010731 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 547048010732 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048010733 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 547048010734 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 547048010735 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 547048010736 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547048010737 active site 547048010738 HIGH motif; other site 547048010739 nucleotide binding site [chemical binding]; other site 547048010740 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 547048010741 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 547048010742 active site 547048010743 KMSKS motif; other site 547048010744 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 547048010745 tRNA binding surface [nucleotide binding]; other site 547048010746 anticodon binding site; other site 547048010747 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 547048010748 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 547048010749 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 547048010750 active site 547048010751 Riboflavin kinase; Region: Flavokinase; smart00904 547048010752 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 547048010753 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 547048010754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048010755 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 547048010756 putative dimerization interface [polypeptide binding]; other site 547048010757 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 547048010758 chaperone protein DnaJ; Provisional; Region: PRK10767 547048010759 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 547048010760 HSP70 interaction site [polypeptide binding]; other site 547048010761 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 547048010762 substrate binding site [polypeptide binding]; other site 547048010763 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 547048010764 Zn binding sites [ion binding]; other site 547048010765 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 547048010766 dimer interface [polypeptide binding]; other site 547048010767 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 547048010768 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 547048010769 nucleotide binding site [chemical binding]; other site 547048010770 hypothetical protein; Provisional; Region: PRK10659 547048010771 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 547048010772 metabolite-proton symporter; Region: 2A0106; TIGR00883 547048010773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048010774 putative substrate translocation pore; other site 547048010775 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 547048010776 MPT binding site; other site 547048010777 trimer interface [polypeptide binding]; other site 547048010778 transaldolase-like protein; Provisional; Region: PTZ00411 547048010779 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 547048010780 active site 547048010781 dimer interface [polypeptide binding]; other site 547048010782 catalytic residue [active] 547048010783 hypothetical protein; Validated; Region: PRK02101 547048010784 threonine synthase; Validated; Region: PRK09225 547048010785 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 547048010786 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048010787 catalytic residue [active] 547048010788 homoserine kinase; Provisional; Region: PRK01212 547048010789 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 547048010790 two-component response regulator; Provisional; Region: PRK11173 547048010791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048010792 active site 547048010793 phosphorylation site [posttranslational modification] 547048010794 intermolecular recognition site; other site 547048010795 dimerization interface [polypeptide binding]; other site 547048010796 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048010797 DNA binding site [nucleotide binding] 547048010798 hypothetical protein; Provisional; Region: PRK10756 547048010799 CreA protein; Region: CreA; pfam05981 547048010800 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 547048010801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048010802 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 547048010803 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 547048010804 catalytic core [active] 547048010805 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 547048010806 Trp operon repressor; Provisional; Region: PRK01381 547048010807 lytic murein transglycosylase; Provisional; Region: PRK11619 547048010808 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 547048010809 N-acetyl-D-glucosamine binding site [chemical binding]; other site 547048010810 catalytic residue [active] 547048010811 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 547048010812 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 547048010813 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 547048010814 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 547048010815 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048010816 motif II; other site 547048010817 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 547048010818 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 547048010819 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 547048010820 HAMP domain; Region: HAMP; pfam00672 547048010821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048010822 metal binding site [ion binding]; metal-binding site 547048010823 active site 547048010824 I-site; other site 547048010825 putative outer membrane lipoprotein; Provisional; Region: PRK09967 547048010826 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048010827 ligand binding site [chemical binding]; other site 547048010828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048010829 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 547048010830 Walker A/P-loop; other site 547048010831 ATP binding site [chemical binding]; other site 547048010832 Q-loop/lid; other site 547048010833 ABC transporter signature motif; other site 547048010834 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048010835 ABC transporter; Region: ABC_tran_2; pfam12848 547048010836 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 547048010837 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 547048010838 Fic family protein [Function unknown]; Region: COG3177 547048010839 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 547048010840 Fic/DOC family; Region: Fic; pfam02661 547048010841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048010842 non-specific DNA binding site [nucleotide binding]; other site 547048010843 salt bridge; other site 547048010844 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 547048010845 sequence-specific DNA binding site [nucleotide binding]; other site 547048010846 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 547048010847 active site 547048010848 nucleotide binding site [chemical binding]; other site 547048010849 HIGH motif; other site 547048010850 KMSKS motif; other site 547048010851 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 547048010852 DNA repair protein RadA; Provisional; Region: PRK11823 547048010853 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 547048010854 Walker A motif/ATP binding site; other site 547048010855 ATP binding site [chemical binding]; other site 547048010856 Walker B motif; other site 547048010857 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 547048010858 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 547048010859 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048010860 motif II; other site 547048010861 hypothetical protein; Provisional; Region: PRK11246 547048010862 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 547048010863 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 547048010864 phosphopentomutase; Provisional; Region: PRK05362 547048010865 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 547048010866 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 547048010867 intersubunit interface [polypeptide binding]; other site 547048010868 active site 547048010869 catalytic residue [active] 547048010870 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 547048010871 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 547048010872 Nucleoside recognition; Region: Gate; pfam07670 547048010873 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 547048010874 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048010875 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 547048010876 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 547048010877 nucleophile elbow; other site 547048010878 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 547048010879 periplasmic protein; Provisional; Region: PRK10568 547048010880 BON domain; Region: BON; pfam04972 547048010881 BON domain; Region: BON; pfam04972 547048010882 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 547048010883 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 547048010884 G1 box; other site 547048010885 putative GEF interaction site [polypeptide binding]; other site 547048010886 GTP/Mg2+ binding site [chemical binding]; other site 547048010887 Switch I region; other site 547048010888 G2 box; other site 547048010889 G3 box; other site 547048010890 Switch II region; other site 547048010891 G4 box; other site 547048010892 G5 box; other site 547048010893 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 547048010894 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 547048010895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048010896 Coenzyme A binding pocket [chemical binding]; other site 547048010897 DNA polymerase III subunit psi; Validated; Region: PRK06856 547048010898 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 547048010899 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 547048010900 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048010901 metal binding site [ion binding]; metal-binding site 547048010902 active site 547048010903 I-site; other site 547048010904 Pectinesterase; Region: Pectinesterase; pfam01095 547048010905 putative pectinesterase; Region: PLN02432; cl01911 547048010906 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 547048010907 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 547048010908 Peptidase family M23; Region: Peptidase_M23; pfam01551 547048010909 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048010910 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 547048010911 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 547048010912 O-Antigen ligase; Region: Wzy_C; pfam04932 547048010913 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 547048010914 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 547048010915 putative active site [active] 547048010916 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 547048010917 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 547048010918 putative N- and C-terminal domain interface [polypeptide binding]; other site 547048010919 putative active site [active] 547048010920 putative MgATP binding site [chemical binding]; other site 547048010921 catalytic site [active] 547048010922 metal binding site [ion binding]; metal-binding site 547048010923 putative carbohydrate binding site [chemical binding]; other site 547048010924 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 547048010925 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 547048010926 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 547048010927 non-specific DNA interactions [nucleotide binding]; other site 547048010928 DNA binding site [nucleotide binding] 547048010929 sequence specific DNA binding site [nucleotide binding]; other site 547048010930 putative cAMP binding site [chemical binding]; other site 547048010931 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 547048010932 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048010933 Walker A/P-loop; other site 547048010934 ATP binding site [chemical binding]; other site 547048010935 Q-loop/lid; other site 547048010936 ABC transporter signature motif; other site 547048010937 Walker B; other site 547048010938 D-loop; other site 547048010939 H-loop/switch region; other site 547048010940 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048010941 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048010942 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048010943 TM-ABC transporter signature motif; other site 547048010944 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 547048010945 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 547048010946 ligand binding site [chemical binding]; other site 547048010947 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 547048010948 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 547048010949 putative active site; other site 547048010950 catalytic residue [active] 547048010951 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 547048010952 hypothetical protein; Provisional; Region: PRK11667 547048010953 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 547048010954 dimerization domain swap beta strand [polypeptide binding]; other site 547048010955 regulatory protein interface [polypeptide binding]; other site 547048010956 active site 547048010957 regulatory phosphorylation site [posttranslational modification]; other site 547048010958 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 547048010959 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 547048010960 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 547048010961 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 547048010962 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 547048010963 active site 547048010964 phosphorylation site [posttranslational modification] 547048010965 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 547048010966 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 547048010967 active site 547048010968 P-loop; other site 547048010969 phosphorylation site [posttranslational modification] 547048010970 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 547048010971 active site 547048010972 P-loop; other site 547048010973 phosphorylation site [posttranslational modification] 547048010974 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 547048010975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048010976 Predicted membrane protein [Function unknown]; Region: COG4269 547048010977 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 547048010978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 547048010979 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 547048010980 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 547048010981 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 547048010982 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 547048010983 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 547048010984 ATP binding site [chemical binding]; other site 547048010985 Mg2+ binding site [ion binding]; other site 547048010986 G-X-G motif; other site 547048010987 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 547048010988 Methyltransferase domain; Region: Methyltransf_26; pfam13659 547048010989 Transposase; Region: HTH_Tnp_1; pfam01527 547048010990 McrBC 5-methylcytosine restriction system component [Defense mechanisms]; Region: McrC; COG4268 547048010991 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 547048010992 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 547048010993 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 547048010994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048010995 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048010996 DNA-binding interface [nucleotide binding]; DNA binding site 547048010997 Integrase core domain; Region: rve; pfam00665 547048010998 transposase/IS protein; Provisional; Region: PRK09183 547048010999 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048011000 Walker A motif; other site 547048011001 ATP binding site [chemical binding]; other site 547048011002 Walker B motif; other site 547048011003 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 547048011004 putative active site [active] 547048011005 dimerization interface [polypeptide binding]; other site 547048011006 putative tRNAtyr binding site [nucleotide binding]; other site 547048011007 hypothetical protein; Reviewed; Region: PRK01637 547048011008 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 547048011009 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048011010 motif II; other site 547048011011 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 547048011012 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 547048011013 G1 box; other site 547048011014 putative GEF interaction site [polypeptide binding]; other site 547048011015 GTP/Mg2+ binding site [chemical binding]; other site 547048011016 Switch I region; other site 547048011017 G2 box; other site 547048011018 G3 box; other site 547048011019 Switch II region; other site 547048011020 G4 box; other site 547048011021 G5 box; other site 547048011022 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 547048011023 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 547048011024 glutamine synthetase; Provisional; Region: glnA; PRK09469 547048011025 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 547048011026 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 547048011027 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 547048011028 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 547048011029 dimer interface [polypeptide binding]; other site 547048011030 phosphorylation site [posttranslational modification] 547048011031 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048011032 ATP binding site [chemical binding]; other site 547048011033 Mg2+ binding site [ion binding]; other site 547048011034 G-X-G motif; other site 547048011035 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 547048011036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048011037 active site 547048011038 phosphorylation site [posttranslational modification] 547048011039 intermolecular recognition site; other site 547048011040 dimerization interface [polypeptide binding]; other site 547048011041 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048011042 Walker A motif; other site 547048011043 ATP binding site [chemical binding]; other site 547048011044 Walker B motif; other site 547048011045 arginine finger; other site 547048011046 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 547048011047 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 547048011048 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048011049 FeS/SAM binding site; other site 547048011050 HemN C-terminal domain; Region: HemN_C; pfam06969 547048011051 Der GTPase activator; Provisional; Region: PRK05244 547048011052 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 547048011053 G1 box; other site 547048011054 GTP/Mg2+ binding site [chemical binding]; other site 547048011055 Switch I region; other site 547048011056 G2 box; other site 547048011057 G3 box; other site 547048011058 Switch II region; other site 547048011059 G4 box; other site 547048011060 G5 box; other site 547048011061 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011062 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011063 DNA polymerase I; Provisional; Region: PRK05755 547048011064 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 547048011065 active site 547048011066 metal binding site 1 [ion binding]; metal-binding site 547048011067 putative 5' ssDNA interaction site; other site 547048011068 metal binding site 3; metal-binding site 547048011069 metal binding site 2 [ion binding]; metal-binding site 547048011070 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 547048011071 putative DNA binding site [nucleotide binding]; other site 547048011072 putative metal binding site [ion binding]; other site 547048011073 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 547048011074 active site 547048011075 catalytic site [active] 547048011076 substrate binding site [chemical binding]; other site 547048011077 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 547048011078 active site 547048011079 DNA binding site [nucleotide binding] 547048011080 catalytic site [active] 547048011081 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 547048011082 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 547048011083 catalytic residues [active] 547048011084 hinge region; other site 547048011085 alpha helical domain; other site 547048011086 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 547048011087 serine/threonine protein kinase; Provisional; Region: PRK11768 547048011088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3084 547048011089 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 547048011090 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 547048011091 GTP binding site; other site 547048011092 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 547048011093 Walker A motif; other site 547048011094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048011095 MULE transposase domain; Region: MULE; pfam10551 547048011096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048011097 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048011098 DNA-binding interface [nucleotide binding]; DNA binding site 547048011099 Integrase core domain; Region: rve; pfam00665 547048011100 transposase/IS protein; Provisional; Region: PRK09183 547048011101 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048011102 Walker A motif; other site 547048011103 ATP binding site [chemical binding]; other site 547048011104 Walker B motif; other site 547048011105 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 547048011106 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 547048011107 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 547048011108 putative dimer interface [polypeptide binding]; other site 547048011109 N-terminal domain interface [polypeptide binding]; other site 547048011110 putative substrate binding pocket (H-site) [chemical binding]; other site 547048011111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048011112 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 547048011113 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 547048011114 dimerization interface [polypeptide binding]; other site 547048011115 Pirin-related protein [General function prediction only]; Region: COG1741 547048011116 Pirin; Region: Pirin; pfam02678 547048011117 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 547048011118 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 547048011119 putative SAM binding site [chemical binding]; other site 547048011120 putative homodimer interface [polypeptide binding]; other site 547048011121 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 547048011122 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 547048011123 putative ligand binding site [chemical binding]; other site 547048011124 hypothetical protein; Reviewed; Region: PRK12497 547048011125 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 547048011126 dimer interface [polypeptide binding]; other site 547048011127 active site 547048011128 outer membrane lipoprotein; Provisional; Region: PRK11023 547048011129 BON domain; Region: BON; pfam04972 547048011130 BON domain; Region: BON; cl02771 547048011131 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 547048011132 Transglycosylase; Region: Transgly; cl17702 547048011133 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 547048011134 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 547048011135 conserved cys residue [active] 547048011136 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 547048011137 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 547048011138 putative active site [active] 547048011139 heme pocket [chemical binding]; other site 547048011140 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048011141 dimer interface [polypeptide binding]; other site 547048011142 phosphorylation site [posttranslational modification] 547048011143 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048011144 ATP binding site [chemical binding]; other site 547048011145 Mg2+ binding site [ion binding]; other site 547048011146 G-X-G motif; other site 547048011147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048011148 active site 547048011149 phosphorylation site [posttranslational modification] 547048011150 intermolecular recognition site; other site 547048011151 dimerization interface [polypeptide binding]; other site 547048011152 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 547048011153 putative binding surface; other site 547048011154 active site 547048011155 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 547048011156 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 547048011157 FeS/SAM binding site; other site 547048011158 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 547048011159 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 547048011160 active site 547048011161 dimer interface [polypeptide binding]; other site 547048011162 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 547048011163 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 547048011164 active site 547048011165 FMN binding site [chemical binding]; other site 547048011166 substrate binding site [chemical binding]; other site 547048011167 3Fe-4S cluster binding site [ion binding]; other site 547048011168 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 547048011169 domain interface; other site 547048011170 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 547048011171 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 547048011172 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 547048011173 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048011174 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 547048011175 stringent starvation protein A; Provisional; Region: sspA; PRK09481 547048011176 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 547048011177 C-terminal domain interface [polypeptide binding]; other site 547048011178 putative GSH binding site (G-site) [chemical binding]; other site 547048011179 dimer interface [polypeptide binding]; other site 547048011180 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 547048011181 dimer interface [polypeptide binding]; other site 547048011182 N-terminal domain interface [polypeptide binding]; other site 547048011183 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 547048011184 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 547048011185 23S rRNA interface [nucleotide binding]; other site 547048011186 L3 interface [polypeptide binding]; other site 547048011187 Predicted ATPase [General function prediction only]; Region: COG1485 547048011188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 547048011189 hypothetical protein; Provisional; Region: PRK11677 547048011190 serine endoprotease; Provisional; Region: PRK10139 547048011191 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 547048011192 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 547048011193 protein binding site [polypeptide binding]; other site 547048011194 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 547048011195 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011196 serine endoprotease; Provisional; Region: PRK10898 547048011197 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 547048011198 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 547048011199 protein binding site [polypeptide binding]; other site 547048011200 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 547048011201 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 547048011202 hinge; other site 547048011203 active site 547048011204 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 547048011205 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 547048011206 anti sigma factor interaction site; other site 547048011207 regulatory phosphorylation site [posttranslational modification]; other site 547048011208 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 547048011209 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 547048011210 mce related protein; Region: MCE; pfam02470 547048011211 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 547048011212 conserved hypothetical integral membrane protein; Region: TIGR00056 547048011213 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 547048011214 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 547048011215 Walker A/P-loop; other site 547048011216 ATP binding site [chemical binding]; other site 547048011217 Q-loop/lid; other site 547048011218 ABC transporter signature motif; other site 547048011219 Walker B; other site 547048011220 D-loop; other site 547048011221 H-loop/switch region; other site 547048011222 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 547048011223 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 547048011224 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 547048011225 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 547048011226 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 547048011227 putative active site [active] 547048011228 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 547048011229 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 547048011230 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 547048011231 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 547048011232 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 547048011233 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 547048011234 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 547048011235 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 547048011236 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 547048011237 Walker A/P-loop; other site 547048011238 ATP binding site [chemical binding]; other site 547048011239 Q-loop/lid; other site 547048011240 ABC transporter signature motif; other site 547048011241 Walker B; other site 547048011242 D-loop; other site 547048011243 H-loop/switch region; other site 547048011244 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 547048011245 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 547048011246 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 547048011247 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 547048011248 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 547048011249 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 547048011250 30S subunit binding site; other site 547048011251 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 547048011252 active site 547048011253 phosphorylation site [posttranslational modification] 547048011254 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 547048011255 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 547048011256 dimerization domain swap beta strand [polypeptide binding]; other site 547048011257 regulatory protein interface [polypeptide binding]; other site 547048011258 active site 547048011259 regulatory phosphorylation site [posttranslational modification]; other site 547048011260 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 547048011261 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 547048011262 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 547048011263 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 547048011264 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 547048011265 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 547048011266 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 547048011267 homotrimer interaction site [polypeptide binding]; other site 547048011268 putative active site [active] 547048011269 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 547048011270 dimer interface [polypeptide binding]; other site 547048011271 putative inhibitory loop; other site 547048011272 trehalose repressor; Provisional; Region: treR; PRK09492 547048011273 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048011274 DNA binding site [nucleotide binding] 547048011275 domain linker motif; other site 547048011276 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 547048011277 dimerization interface [polypeptide binding]; other site 547048011278 ligand binding site [chemical binding]; other site 547048011279 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 547048011280 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 547048011281 active site turn [active] 547048011282 phosphorylation site [posttranslational modification] 547048011283 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 547048011284 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 547048011285 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 547048011286 Ca binding site [ion binding]; other site 547048011287 active site 547048011288 catalytic site [active] 547048011289 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 547048011290 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 547048011291 Soluble cytochrome b562 [Energy production and conversion]; Region: CybC; COG3783 547048011292 peptidase PmbA; Provisional; Region: PRK11040 547048011293 hypothetical protein; Provisional; Region: PRK05255 547048011294 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 547048011295 RNAase interaction site [polypeptide binding]; other site 547048011296 Barnase, a member of the family of homologous microbial ribonucleases, catalyses the cleavage of single-stranded RNA via a two-step mechanism thought to be similar to that of pancreatic ribonuclease. The mechanism involves a transesterification to give a...; Region: barnase; cd00933 547048011297 active site 547048011298 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 547048011299 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 547048011300 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 547048011301 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 547048011302 HlyD family secretion protein; Region: HlyD_3; pfam13437 547048011303 efflux system membrane protein; Provisional; Region: PRK11594 547048011304 transcriptional regulator; Provisional; Region: PRK10632 547048011305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048011306 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 547048011307 putative effector binding pocket; other site 547048011308 dimerization interface [polypeptide binding]; other site 547048011309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 547048011310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 547048011311 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 547048011312 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 547048011313 Family description; Region: VCBS; pfam13517 547048011314 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 547048011315 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 547048011316 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 547048011317 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048011318 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048011319 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 547048011320 active site 547048011321 catalytic residues [active] 547048011322 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048011323 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048011324 protease TldD; Provisional; Region: tldD; PRK10735 547048011325 nitrilase; Region: PLN02798 547048011326 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 547048011327 putative active site [active] 547048011328 catalytic triad [active] 547048011329 dimer interface [polypeptide binding]; other site 547048011330 hypothetical protein; Provisional; Region: PRK10899 547048011331 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 547048011332 ribonuclease G; Provisional; Region: PRK11712 547048011333 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 547048011334 homodimer interface [polypeptide binding]; other site 547048011335 oligonucleotide binding site [chemical binding]; other site 547048011336 Maf-like protein; Region: Maf; pfam02545 547048011337 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 547048011338 active site 547048011339 dimer interface [polypeptide binding]; other site 547048011340 rod shape-determining protein MreD; Provisional; Region: PRK11060 547048011341 rod shape-determining protein MreC; Region: mreC; TIGR00219 547048011342 rod shape-determining protein MreC; Region: MreC; pfam04085 547048011343 rod shape-determining protein MreB; Provisional; Region: PRK13927 547048011344 MreB and similar proteins; Region: MreB_like; cd10225 547048011345 nucleotide binding site [chemical binding]; other site 547048011346 Mg binding site [ion binding]; other site 547048011347 putative protofilament interaction site [polypeptide binding]; other site 547048011348 RodZ interaction site [polypeptide binding]; other site 547048011349 regulatory protein CsrD; Provisional; Region: PRK11059 547048011350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048011351 metal binding site [ion binding]; metal-binding site 547048011352 active site 547048011353 I-site; other site 547048011354 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048011355 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 547048011356 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 547048011357 NADP binding site [chemical binding]; other site 547048011358 dimer interface [polypeptide binding]; other site 547048011359 TMAO/DMSO reductase; Reviewed; Region: PRK05363 547048011360 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 547048011361 Moco binding site; other site 547048011362 metal coordination site [ion binding]; other site 547048011363 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 547048011364 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 547048011365 Dehydroquinase class II; Region: DHquinase_II; pfam01220 547048011366 active site 547048011367 trimer interface [polypeptide binding]; other site 547048011368 dimer interface [polypeptide binding]; other site 547048011369 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 547048011370 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 547048011371 carboxyltransferase (CT) interaction site; other site 547048011372 biotinylation site [posttranslational modification]; other site 547048011373 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 547048011374 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 547048011375 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 547048011376 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 547048011377 hypothetical protein; Provisional; Region: PRK10633 547048011378 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 547048011379 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 547048011380 Na binding site [ion binding]; other site 547048011381 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 547048011382 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 547048011383 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 547048011384 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 547048011385 FMN binding site [chemical binding]; other site 547048011386 active site 547048011387 catalytic residues [active] 547048011388 substrate binding site [chemical binding]; other site 547048011389 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 547048011390 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 547048011391 Bacterial self-protective colicin-like immunity; Region: Colicin_immun; pfam09204 547048011392 Transcriptional regulators [Transcription]; Region: GntR; COG1802 547048011393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 547048011394 DNA-binding site [nucleotide binding]; DNA binding site 547048011395 FCD domain; Region: FCD; pfam07729 547048011396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048011397 metabolite-proton symporter; Region: 2A0106; TIGR00883 547048011398 putative substrate translocation pore; other site 547048011399 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 547048011400 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 547048011401 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 547048011402 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 547048011403 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 547048011404 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 547048011405 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048011406 DNA-binding site [nucleotide binding]; DNA binding site 547048011407 RNA-binding motif; other site 547048011408 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 547048011409 DNA-binding site [nucleotide binding]; DNA binding site 547048011410 RNA-binding motif; other site 547048011411 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011412 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 547048011413 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 547048011414 putative S-transferase; Provisional; Region: PRK11752 547048011415 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 547048011416 C-terminal domain interface [polypeptide binding]; other site 547048011417 GSH binding site (G-site) [chemical binding]; other site 547048011418 dimer interface [polypeptide binding]; other site 547048011419 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 547048011420 dimer interface [polypeptide binding]; other site 547048011421 N-terminal domain interface [polypeptide binding]; other site 547048011422 active site 547048011423 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 547048011424 putative active site [active] 547048011425 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 547048011426 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 547048011427 N- and C-terminal domain interface [polypeptide binding]; other site 547048011428 active site 547048011429 MgATP binding site [chemical binding]; other site 547048011430 catalytic site [active] 547048011431 metal binding site [ion binding]; metal-binding site 547048011432 carbohydrate binding site [chemical binding]; other site 547048011433 putative homodimer interface [polypeptide binding]; other site 547048011434 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048011435 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048011436 TM-ABC transporter signature motif; other site 547048011437 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048011438 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048011439 TM-ABC transporter signature motif; other site 547048011440 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048011441 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048011442 Walker A/P-loop; other site 547048011443 ATP binding site [chemical binding]; other site 547048011444 Q-loop/lid; other site 547048011445 ABC transporter signature motif; other site 547048011446 Walker B; other site 547048011447 D-loop; other site 547048011448 H-loop/switch region; other site 547048011449 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048011450 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 547048011451 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 547048011452 ligand binding site [chemical binding]; other site 547048011453 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 547048011454 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 547048011455 putative acyl-acceptor binding pocket; other site 547048011456 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 547048011457 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 547048011458 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 547048011459 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 547048011460 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048011461 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 547048011462 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 547048011463 Walker A/P-loop; other site 547048011464 ATP binding site [chemical binding]; other site 547048011465 Q-loop/lid; other site 547048011466 ABC transporter signature motif; other site 547048011467 Walker B; other site 547048011468 D-loop; other site 547048011469 H-loop/switch region; other site 547048011470 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 547048011471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048011472 dimer interface [polypeptide binding]; other site 547048011473 conserved gate region; other site 547048011474 putative PBP binding loops; other site 547048011475 ABC-ATPase subunit interface; other site 547048011476 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 547048011477 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 547048011478 active site 547048011479 dimer interface [polypeptide binding]; other site 547048011480 non-prolyl cis peptide bond; other site 547048011481 insertion regions; other site 547048011482 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048011483 substrate binding pocket [chemical binding]; other site 547048011484 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 547048011485 membrane-bound complex binding site; other site 547048011486 hinge residues; other site 547048011487 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 547048011488 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 547048011489 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 547048011490 intersubunit interface [polypeptide binding]; other site 547048011491 active site 547048011492 catalytic residue [active] 547048011493 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 547048011494 substrate binding site [chemical binding]; other site 547048011495 dimer interface [polypeptide binding]; other site 547048011496 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048011497 ATP binding site [chemical binding]; other site 547048011498 ABC-type ribose transport system, auxiliary component [Carbohydrate transport and metabolism]; Region: RbsD; COG1869 547048011499 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 547048011500 Helix-turn-helix domain; Region: HTH_18; pfam12833 547048011501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048011502 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 547048011503 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 547048011504 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 547048011505 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 547048011506 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 547048011507 AP (apurinic/apyrimidinic) site pocket; other site 547048011508 DNA interaction; other site 547048011509 Metal-binding active site; metal-binding site 547048011510 PAAR motif; Region: PAAR_motif; pfam05488 547048011511 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048011512 RHS Repeat; Region: RHS_repeat; pfam05593 547048011513 RHS Repeat; Region: RHS_repeat; pfam05593 547048011514 RHS Repeat; Region: RHS_repeat; pfam05593 547048011515 RHS Repeat; Region: RHS_repeat; pfam05593 547048011516 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 547048011517 RHS protein; Region: RHS; pfam03527 547048011518 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048011519 Uncharacterized conserved protein [Function unknown]; Region: COG5435 547048011520 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 547048011521 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048011522 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048011523 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 547048011524 ImpA domain protein; Region: DUF3702; pfam12486 547048011525 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 547048011526 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048011527 non-specific DNA binding site [nucleotide binding]; other site 547048011528 salt bridge; other site 547048011529 sequence-specific DNA binding site [nucleotide binding]; other site 547048011530 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 547048011531 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 547048011532 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 547048011533 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 547048011534 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 547048011535 RHS protein; Region: RHS; pfam03527 547048011536 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 547048011537 Uncharacterized conserved protein [Function unknown]; Region: COG5435 547048011538 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 547048011539 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 547048011540 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 547048011541 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048011542 ImpA domain protein; Region: DUF3702; pfam12486 547048011543 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048011544 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048011545 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 547048011546 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 547048011547 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 547048011548 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 547048011549 Protein of unknown function (DUF1020); Region: DUF1020; pfam06255 547048011550 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 547048011551 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 547048011552 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 547048011553 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 547048011554 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 547048011555 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048011556 Walker A motif; other site 547048011557 ATP binding site [chemical binding]; other site 547048011558 Walker B motif; other site 547048011559 arginine finger; other site 547048011560 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048011561 Walker A motif; other site 547048011562 ATP binding site [chemical binding]; other site 547048011563 Walker B motif; other site 547048011564 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 547048011565 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 547048011566 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 547048011567 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 547048011568 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 547048011569 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 547048011570 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 547048011571 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 547048011572 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 547048011573 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048011574 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048011575 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048011576 putative transposase OrfB; Reviewed; Region: PHA02517 547048011577 HTH-like domain; Region: HTH_21; pfam13276 547048011578 Integrase core domain; Region: rve; pfam00665 547048011579 Integrase core domain; Region: rve_2; pfam13333 547048011580 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048011581 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 547048011582 glycogen phosphorylase; Provisional; Region: PRK14986 547048011583 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 547048011584 homodimer interface [polypeptide binding]; other site 547048011585 active site pocket [active] 547048011586 glycogen synthase; Provisional; Region: glgA; PRK00654 547048011587 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 547048011588 ADP-binding pocket [chemical binding]; other site 547048011589 homodimer interface [polypeptide binding]; other site 547048011590 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 547048011591 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 547048011592 ligand binding site; other site 547048011593 oligomer interface; other site 547048011594 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 547048011595 sulfate 1 binding site; other site 547048011596 glycogen debranching enzyme; Provisional; Region: PRK03705 547048011597 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 547048011598 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 547048011599 active site 547048011600 catalytic site [active] 547048011601 glycogen branching enzyme; Provisional; Region: PRK05402 547048011602 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 547048011603 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 547048011604 active site 547048011605 catalytic site [active] 547048011606 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 547048011607 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 547048011608 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 547048011609 Histidine kinase; Region: His_kinase; pfam06580 547048011610 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048011611 ATP binding site [chemical binding]; other site 547048011612 Mg2+ binding site [ion binding]; other site 547048011613 G-X-G motif; other site 547048011614 potential frameshift: common BLAST hit: gi|145600563|ref|YP_001164639.1| invasin 547048011615 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011616 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011617 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 547048011618 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011619 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011620 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011621 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011622 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011623 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011624 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011625 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011626 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 547048011627 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 547048011628 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 547048011629 putative antibiotic transporter; Provisional; Region: PRK10739 547048011630 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 547048011631 AAA domain; Region: AAA_33; pfam13671 547048011632 ATP-binding site [chemical binding]; other site 547048011633 Gluconate-6-phosphate binding site [chemical binding]; other site 547048011634 high-affinity gluconate transporter; Provisional; Region: PRK14984 547048011635 gluconate transporter; Region: gntP; TIGR00791 547048011636 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 547048011637 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 547048011638 DNA binding site [nucleotide binding] 547048011639 domain linker motif; other site 547048011640 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 547048011641 putative ligand binding site [chemical binding]; other site 547048011642 putative dimerization interface [polypeptide binding]; other site 547048011643 Pirin-related protein [General function prediction only]; Region: COG1741 547048011644 Pirin; Region: Pirin; pfam02678 547048011645 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 547048011646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048011647 active site 547048011648 phosphorylation site [posttranslational modification] 547048011649 intermolecular recognition site; other site 547048011650 dimerization interface [polypeptide binding]; other site 547048011651 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 547048011652 DNA binding site [nucleotide binding] 547048011653 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 547048011654 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048011655 substrate binding site [chemical binding]; other site 547048011656 ATP binding site [chemical binding]; other site 547048011657 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 547048011658 intersubunit interface [polypeptide binding]; other site 547048011659 active site 547048011660 zinc binding site [ion binding]; other site 547048011661 Na+ binding site [ion binding]; other site 547048011662 ABC-type sugar transport system, auxiliary component [General function prediction only]; Region: COG3822 547048011663 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 547048011664 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 547048011665 putative ligand binding site [chemical binding]; other site 547048011666 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048011667 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048011668 TM-ABC transporter signature motif; other site 547048011669 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 547048011670 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048011671 Walker A/P-loop; other site 547048011672 ATP binding site [chemical binding]; other site 547048011673 Q-loop/lid; other site 547048011674 ABC transporter signature motif; other site 547048011675 Walker B; other site 547048011676 D-loop; other site 547048011677 H-loop/switch region; other site 547048011678 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048011679 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 547048011680 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048011681 dimerization interface [polypeptide binding]; other site 547048011682 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 547048011683 dimer interface [polypeptide binding]; other site 547048011684 phosphorylation site [posttranslational modification] 547048011685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048011686 ATP binding site [chemical binding]; other site 547048011687 Mg2+ binding site [ion binding]; other site 547048011688 G-X-G motif; other site 547048011689 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 547048011690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048011691 active site 547048011692 phosphorylation site [posttranslational modification] 547048011693 intermolecular recognition site; other site 547048011694 dimerization interface [polypeptide binding]; other site 547048011695 Predicted flavoproteins [General function prediction only]; Region: COG2081 547048011696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048011697 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 547048011698 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 547048011699 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011700 universal stress protein UspB; Provisional; Region: PRK04960 547048011701 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 547048011702 Ligand Binding Site [chemical binding]; other site 547048011703 glutamate dehydrogenase; Provisional; Region: PRK09414 547048011704 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 547048011705 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 547048011706 NAD(P) binding site [chemical binding]; other site 547048011707 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 547048011708 active site 547048011709 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 547048011710 putative methyltransferase; Provisional; Region: PRK10742 547048011711 oligopeptidase A; Provisional; Region: PRK10911 547048011712 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 547048011713 active site 547048011714 Zn binding site [ion binding]; other site 547048011715 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 547048011716 glutathione reductase; Validated; Region: PRK06116 547048011717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 547048011718 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 547048011719 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 547048011720 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 547048011721 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 547048011722 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 547048011723 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 547048011724 fructuronate transporter; Provisional; Region: PRK10034; cl15264 547048011725 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 547048011726 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 547048011727 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048011728 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 547048011729 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 547048011730 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 547048011731 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 547048011732 Autotransporter beta-domain; Region: Autotransporter; smart00869 547048011733 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 547048011734 CDP-diacylglycerol pyrophosphatase [Lipid metabolism]; Region: Cdh; COG2134 547048011735 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048011736 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 547048011737 active site 1 [active] 547048011738 dimer interface [polypeptide binding]; other site 547048011739 hexamer interface [polypeptide binding]; other site 547048011740 active site 2 [active] 547048011741 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 547048011742 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 547048011743 substrate binding site [chemical binding]; other site 547048011744 ATP binding site [chemical binding]; other site 547048011745 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 547048011746 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 547048011747 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 547048011748 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 547048011749 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 547048011750 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 547048011751 sugar binding site [chemical binding]; other site 547048011752 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 547048011753 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 547048011754 biofilm formation regulator HmsP; Provisional; Region: PRK11829 547048011755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 547048011756 metal binding site [ion binding]; metal-binding site 547048011757 active site 547048011758 I-site; other site 547048011759 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 547048011760 endo-1,4-D-glucanase; Provisional; Region: PRK11097 547048011761 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 547048011762 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048011763 Walker A/P-loop; other site 547048011764 ATP binding site [chemical binding]; other site 547048011765 Q-loop/lid; other site 547048011766 ABC transporter signature motif; other site 547048011767 Walker B; other site 547048011768 D-loop; other site 547048011769 H-loop/switch region; other site 547048011770 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 547048011771 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 547048011772 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 547048011773 Walker A/P-loop; other site 547048011774 ATP binding site [chemical binding]; other site 547048011775 Q-loop/lid; other site 547048011776 ABC transporter signature motif; other site 547048011777 Walker B; other site 547048011778 D-loop; other site 547048011779 H-loop/switch region; other site 547048011780 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 547048011781 dipeptide transporter; Provisional; Region: PRK10913 547048011782 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 547048011783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048011784 dimer interface [polypeptide binding]; other site 547048011785 conserved gate region; other site 547048011786 putative PBP binding loops; other site 547048011787 ABC-ATPase subunit interface; other site 547048011788 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 547048011789 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 547048011790 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048011791 dimer interface [polypeptide binding]; other site 547048011792 conserved gate region; other site 547048011793 putative PBP binding loops; other site 547048011794 ABC-ATPase subunit interface; other site 547048011795 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 547048011796 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 547048011797 peptide binding site [polypeptide binding]; other site 547048011798 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 547048011799 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 547048011800 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 547048011801 haemagglutination activity domain; Region: Haemagg_act; pfam05860 547048011802 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048011803 regulatory protein UhpC; Provisional; Region: PRK11663 547048011804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048011805 putative substrate translocation pore; other site 547048011806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048011807 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 547048011808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 547048011809 active site 547048011810 phosphorylation site [posttranslational modification] 547048011811 intermolecular recognition site; other site 547048011812 dimerization interface [polypeptide binding]; other site 547048011813 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 547048011814 DNA binding residues [nucleotide binding] 547048011815 dimerization interface [polypeptide binding]; other site 547048011816 phosphoethanolamine transferase; Provisional; Region: PRK11560 547048011817 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 547048011818 Sulfatase; Region: Sulfatase; pfam00884 547048011819 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 547048011820 putative proline-specific permease; Provisional; Region: proY; PRK10580 547048011821 Spore germination protein; Region: Spore_permease; cl17796 547048011822 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 547048011823 active sites [active] 547048011824 tetramer interface [polypeptide binding]; other site 547048011825 urocanate hydratase; Provisional; Region: PRK05414 547048011826 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 547048011827 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 547048011828 dimer interface [polypeptide binding]; other site 547048011829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048011830 catalytic residue [active] 547048011831 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 547048011832 active site 547048011833 hypothetical protein; Provisional; Region: PRK07206 547048011834 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 547048011835 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 547048011836 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 547048011837 putative ligand binding residues [chemical binding]; other site 547048011838 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 547048011839 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 547048011840 Walker A/P-loop; other site 547048011841 ATP binding site [chemical binding]; other site 547048011842 Q-loop/lid; other site 547048011843 ABC transporter signature motif; other site 547048011844 Walker B; other site 547048011845 D-loop; other site 547048011846 H-loop/switch region; other site 547048011847 Virulence protein [General function prediction only]; Region: COG3943 547048011848 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 547048011849 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 547048011850 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 547048011851 non-specific DNA binding site [nucleotide binding]; other site 547048011852 salt bridge; other site 547048011853 sequence-specific DNA binding site [nucleotide binding]; other site 547048011854 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 547048011855 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 547048011856 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 547048011857 integrase; Provisional; Region: PRK09692 547048011858 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 547048011859 active site 547048011860 Int/Topo IB signature motif; other site 547048011861 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 547048011862 putative dimerization interface [polypeptide binding]; other site 547048011863 Transcriptional regulators [Transcription]; Region: PurR; COG1609 547048011864 putative ligand binding site [chemical binding]; other site 547048011865 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048011866 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 547048011867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048011868 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 547048011869 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 547048011870 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 547048011871 TM-ABC transporter signature motif; other site 547048011872 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 547048011873 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 547048011874 Walker A/P-loop; other site 547048011875 ATP binding site [chemical binding]; other site 547048011876 Q-loop/lid; other site 547048011877 ABC transporter signature motif; other site 547048011878 Walker B; other site 547048011879 D-loop; other site 547048011880 H-loop/switch region; other site 547048011881 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 547048011882 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 547048011883 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 547048011884 putative ligand binding site [chemical binding]; other site 547048011885 xylose isomerase; Provisional; Region: PRK05474 547048011886 xylose isomerase; Region: xylose_isom_A; TIGR02630 547048011887 xylulokinase; Provisional; Region: PRK15027 547048011888 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 547048011889 N- and C-terminal domain interface [polypeptide binding]; other site 547048011890 active site 547048011891 MgATP binding site [chemical binding]; other site 547048011892 catalytic site [active] 547048011893 metal binding site [ion binding]; metal-binding site 547048011894 xylulose binding site [chemical binding]; other site 547048011895 homodimer interface [polypeptide binding]; other site 547048011896 Fimbrial protein; Region: Fimbrial; pfam00419 547048011897 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048011898 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048011899 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048011900 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048011901 PapC C-terminal domain; Region: PapC_C; pfam13953 547048011902 PapC N-terminal domain; Region: PapC_N; pfam13954 547048011903 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048011904 Fimbrial protein; Region: Fimbrial; cl01416 547048011905 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 547048011906 Acyltransferase family; Region: Acyl_transf_3; pfam01757 547048011907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048011908 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048011909 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048011910 putative transposase OrfB; Reviewed; Region: PHA02517 547048011911 HTH-like domain; Region: HTH_21; pfam13276 547048011912 Integrase core domain; Region: rve; pfam00665 547048011913 Integrase core domain; Region: rve_2; pfam13333 547048011914 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 547048011915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 547048011916 putative substrate translocation pore; other site 547048011917 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 547048011918 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 547048011919 selenocysteine synthase; Provisional; Region: PRK04311 547048011920 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 547048011921 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 547048011922 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 547048011923 catalytic residue [active] 547048011924 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 547048011925 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 547048011926 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 547048011927 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 547048011928 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 547048011929 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 547048011930 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 547048011931 superoxide dismutase; Provisional; Region: PRK10925 547048011932 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 547048011933 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 547048011934 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 547048011935 dimerization interface [polypeptide binding]; other site 547048011936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 547048011937 dimer interface [polypeptide binding]; other site 547048011938 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 547048011939 putative CheW interface [polypeptide binding]; other site 547048011940 Electron transfer DM13; Region: DM13; pfam10517 547048011941 hypothetical protein; Provisional; Region: PRK11020 547048011942 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 547048011943 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 547048011944 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 547048011945 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 547048011946 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 547048011947 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 547048011948 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 547048011949 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 547048011950 active site 547048011951 P-loop; other site 547048011952 phosphorylation site [posttranslational modification] 547048011953 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 547048011954 active site 547048011955 phosphorylation site [posttranslational modification] 547048011956 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048011957 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 547048011958 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048011959 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 547048011960 DALR anticodon binding domain; Region: DALR_1; pfam05746 547048011961 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 547048011962 dimer interface [polypeptide binding]; other site 547048011963 motif 1; other site 547048011964 active site 547048011965 motif 2; other site 547048011966 motif 3; other site 547048011967 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 547048011968 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 547048011969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 547048011970 Coenzyme A binding pocket [chemical binding]; other site 547048011971 putative outer membrane lipoprotein; Provisional; Region: PRK10510 547048011972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 547048011973 ligand binding site [chemical binding]; other site 547048011974 Predicted transcriptional regulator [Transcription]; Region: COG2345 547048011975 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 547048011976 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 547048011977 dimerization interface [polypeptide binding]; other site 547048011978 ligand binding site [chemical binding]; other site 547048011979 NADP binding site [chemical binding]; other site 547048011980 catalytic site [active] 547048011981 alpha-amylase; Reviewed; Region: malS; PRK09505 547048011982 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 547048011983 active site 547048011984 catalytic site [active] 547048011985 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 547048011986 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 547048011987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048011988 homodimer interface [polypeptide binding]; other site 547048011989 catalytic residue [active] 547048011990 putative transporter; Validated; Region: PRK03818 547048011991 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 547048011992 TrkA-C domain; Region: TrkA_C; pfam02080 547048011993 TrkA-C domain; Region: TrkA_C; pfam02080 547048011994 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 547048011995 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 547048011996 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 547048011997 putative dimer interface [polypeptide binding]; other site 547048011998 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 547048011999 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 547048012000 putative dimer interface [polypeptide binding]; other site 547048012001 hypothetical protein; Provisional; Region: PRK11616 547048012002 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 547048012003 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 547048012004 hypothetical protein; Provisional; Region: PRK06815 547048012005 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 547048012006 tetramer interface [polypeptide binding]; other site 547048012007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 547048012008 catalytic residue [active] 547048012009 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 547048012010 ornithine cyclodeaminase; Validated; Region: PRK06823 547048012011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 547048012012 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048012013 Helix-turn-helix domain; Region: HTH_28; pfam13518 547048012014 putative transposase OrfB; Reviewed; Region: PHA02517 547048012015 HTH-like domain; Region: HTH_21; pfam13276 547048012016 Integrase core domain; Region: rve; pfam00665 547048012017 Integrase core domain; Region: rve_2; pfam13333 547048012018 sugar phosphate phosphatase; Provisional; Region: PRK10513 547048012019 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048012020 active site 547048012021 motif I; other site 547048012022 motif II; other site 547048012023 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048012024 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 547048012025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 547048012026 Mg2+ binding site [ion binding]; other site 547048012027 G-X-G motif; other site 547048012028 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 547048012029 anchoring element; other site 547048012030 dimer interface [polypeptide binding]; other site 547048012031 ATP binding site [chemical binding]; other site 547048012032 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 547048012033 active site 547048012034 putative metal-binding site [ion binding]; other site 547048012035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 547048012036 recombination protein F; Reviewed; Region: recF; PRK00064 547048012037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048012038 Walker A/P-loop; other site 547048012039 ATP binding site [chemical binding]; other site 547048012040 Q-loop/lid; other site 547048012041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048012042 ABC transporter signature motif; other site 547048012043 Walker B; other site 547048012044 D-loop; other site 547048012045 H-loop/switch region; other site 547048012046 DNA polymerase III subunit beta; Validated; Region: PRK05643 547048012047 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 547048012048 putative DNA binding surface [nucleotide binding]; other site 547048012049 dimer interface [polypeptide binding]; other site 547048012050 beta-clamp/clamp loader binding surface; other site 547048012051 beta-clamp/translesion DNA polymerase binding surface; other site 547048012052 DnaA N-terminal domain; Region: DnaA_N; pfam11638 547048012053 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 547048012054 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048012055 Walker A motif; other site 547048012056 ATP binding site [chemical binding]; other site 547048012057 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 547048012058 Walker B motif; other site 547048012059 arginine finger; other site 547048012060 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 547048012061 DnaA box-binding interface [nucleotide binding]; other site 547048012062 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 547048012063 ribonuclease P; Reviewed; Region: rnpA; PRK01732 547048012064 hypothetical protein; Validated; Region: PRK00041 547048012065 membrane protein insertase; Provisional; Region: PRK01318 547048012066 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 547048012067 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 547048012068 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 547048012069 trmE is a tRNA modification GTPase; Region: trmE; cd04164 547048012070 G1 box; other site 547048012071 GTP/Mg2+ binding site [chemical binding]; other site 547048012072 Switch I region; other site 547048012073 G2 box; other site 547048012074 Switch II region; other site 547048012075 G3 box; other site 547048012076 G4 box; other site 547048012077 G5 box; other site 547048012078 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 547048012079 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 547048012080 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 547048012081 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 547048012082 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 547048012083 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 547048012084 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 547048012085 Yersinia protein of unknown function (DUF3831); Region: DUF3831; pfam12908 547048012086 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 547048012087 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 547048012088 motif II; other site 547048012089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048012090 dimer interface [polypeptide binding]; other site 547048012091 conserved gate region; other site 547048012092 putative PBP binding loops; other site 547048012093 ABC-ATPase subunit interface; other site 547048012094 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 547048012095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048012096 dimer interface [polypeptide binding]; other site 547048012097 conserved gate region; other site 547048012098 putative PBP binding loops; other site 547048012099 ABC-ATPase subunit interface; other site 547048012100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 547048012101 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048012102 substrate binding pocket [chemical binding]; other site 547048012103 membrane-bound complex binding site; other site 547048012104 hinge residues; other site 547048012105 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 547048012106 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 547048012107 transcriptional regulator PhoU; Provisional; Region: PRK11115 547048012108 PhoU domain; Region: PhoU; pfam01895 547048012109 PhoU domain; Region: PhoU; pfam01895 547048012110 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 547048012111 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 547048012112 Walker A/P-loop; other site 547048012113 ATP binding site [chemical binding]; other site 547048012114 Q-loop/lid; other site 547048012115 ABC transporter signature motif; other site 547048012116 Walker B; other site 547048012117 D-loop; other site 547048012118 H-loop/switch region; other site 547048012119 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 547048012120 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048012121 dimer interface [polypeptide binding]; other site 547048012122 conserved gate region; other site 547048012123 putative PBP binding loops; other site 547048012124 ABC-ATPase subunit interface; other site 547048012125 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 547048012126 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 547048012127 dimer interface [polypeptide binding]; other site 547048012128 conserved gate region; other site 547048012129 putative PBP binding loops; other site 547048012130 ABC-ATPase subunit interface; other site 547048012131 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 547048012132 substrate binding pocket [chemical binding]; other site 547048012133 membrane-bound complex binding site; other site 547048012134 hinge residues; other site 547048012135 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 547048012136 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 547048012137 glutaminase active site [active] 547048012138 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 547048012139 dimer interface [polypeptide binding]; other site 547048012140 active site 547048012141 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 547048012142 dimer interface [polypeptide binding]; other site 547048012143 active site 547048012144 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 547048012145 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 547048012146 Substrate binding site; other site 547048012147 Mg++ binding site; other site 547048012148 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 547048012149 active site 547048012150 substrate binding site [chemical binding]; other site 547048012151 CoA binding site [chemical binding]; other site 547048012152 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 547048012153 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 547048012154 gamma subunit interface [polypeptide binding]; other site 547048012155 epsilon subunit interface [polypeptide binding]; other site 547048012156 LBP interface [polypeptide binding]; other site 547048012157 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 547048012158 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 547048012159 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 547048012160 alpha subunit interaction interface [polypeptide binding]; other site 547048012161 Walker A motif; other site 547048012162 ATP binding site [chemical binding]; other site 547048012163 Walker B motif; other site 547048012164 inhibitor binding site; inhibition site 547048012165 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 547048012166 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 547048012167 core domain interface [polypeptide binding]; other site 547048012168 delta subunit interface [polypeptide binding]; other site 547048012169 epsilon subunit interface [polypeptide binding]; other site 547048012170 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 547048012171 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 547048012172 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 547048012173 beta subunit interaction interface [polypeptide binding]; other site 547048012174 Walker A motif; other site 547048012175 ATP binding site [chemical binding]; other site 547048012176 Walker B motif; other site 547048012177 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 547048012178 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 547048012179 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 547048012180 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 547048012181 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 547048012182 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 547048012183 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 547048012184 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 547048012185 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 547048012186 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 547048012187 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 547048012188 S-adenosylmethionine binding site [chemical binding]; other site 547048012189 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 547048012190 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 547048012191 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 547048012192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048012193 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048012194 DNA-binding interface [nucleotide binding]; DNA binding site 547048012195 Integrase core domain; Region: rve; pfam00665 547048012196 transposase/IS protein; Provisional; Region: PRK09183 547048012197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048012198 Walker A motif; other site 547048012199 ATP binding site [chemical binding]; other site 547048012200 Walker B motif; other site 547048012201 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 547048012202 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 547048012203 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 547048012204 Phage Tail Collar Domain; Region: Collar; pfam07484 547048012205 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 547048012206 Phage-related protein, tail component [Function unknown]; Region: COG4733 547048012207 Putative phage tail protein; Region: Phage-tail_3; pfam13550 547048012208 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 547048012209 Interdomain contacts; other site 547048012210 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 547048012211 Fibronectin type III protein; Region: DUF3672; pfam12421 547048012212 Phage-related protein, tail component [Function unknown]; Region: COG4723 547048012213 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 547048012214 MPN+ (JAMM) motif; other site 547048012215 Zinc-binding site [ion binding]; other site 547048012216 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 547048012217 NlpC/P60 family; Region: NLPC_P60; pfam00877 547048012218 lambda-like phage minor tail protein L; Region: phage_tail_L; TIGR01600 547048012219 Phage-related protein [Function unknown]; Region: COG4718 547048012220 Mu-like prophage protein [General function prediction only]; Region: COG3941 547048012221 tape measure domain; Region: tape_meas_nterm; TIGR02675 547048012222 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 547048012223 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 547048012224 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 547048012225 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 547048012226 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 547048012227 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 547048012228 large terminase protein; Provisional; Region: 17; PHA02533 547048012229 Terminase-like family; Region: Terminase_6; pfam03237 547048012230 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]; Region: COG2401 547048012231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048012232 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13540 547048012233 Walker A/P-loop; other site 547048012234 ATP binding site [chemical binding]; other site 547048012235 Q-loop/lid; other site 547048012236 ABC transporter signature motif; other site 547048012237 Walker B; other site 547048012238 D-loop; other site 547048012239 H-loop/switch region; other site 547048012240 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 547048012241 ParB-like nuclease domain; Region: ParBc; pfam02195 547048012242 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 547048012243 ParB-like nuclease domain; Region: ParBc; pfam02195 547048012244 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 547048012245 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 547048012246 ATP binding site [chemical binding]; other site 547048012247 putative Mg++ binding site [ion binding]; other site 547048012248 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 547048012249 nucleotide binding region [chemical binding]; other site 547048012250 ATP-binding site [chemical binding]; other site 547048012251 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 547048012252 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 547048012253 Repressor of phase-1 flagellin; Region: Flag1_repress; pfam03614 547048012254 Transposase IS200 like; Region: Y1_Tnp; pfam01797 547048012255 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 547048012256 active site 547048012257 putative DNA-binding cleft [nucleotide binding]; other site 547048012258 dimer interface [polypeptide binding]; other site 547048012259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048012260 endonuclease subunit; Provisional; Region: 46; PHA02562 547048012261 Walker A/P-loop; other site 547048012262 ATP binding site [chemical binding]; other site 547048012263 Q-loop/lid; other site 547048012264 ABC transporter signature motif; other site 547048012265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 547048012266 ABC transporter signature motif; other site 547048012267 Walker B; other site 547048012268 D-loop; other site 547048012269 H-loop/switch region; other site 547048012270 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 547048012271 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 547048012272 active site 547048012273 metal binding site [ion binding]; metal-binding site 547048012274 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 547048012275 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 547048012276 substrate binding pocket [chemical binding]; other site 547048012277 membrane-bound complex binding site; other site 547048012278 hypothetical protein; Region: PHA02053 547048012279 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 547048012280 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 547048012281 SPFH domain / Band 7 family; Region: Band_7; pfam01145 547048012282 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 547048012283 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 547048012284 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 547048012285 Walker A motif; other site 547048012286 ATP binding site [chemical binding]; other site 547048012287 Walker B motif; other site 547048012288 PIN domain of bacteriophage T3, T4 RNase H, T5-5'nuclease, and homologs; Region: PIN_T4-like; cd09860 547048012289 5'-3' exonuclease; Region: 53EXOc; smart00475 547048012290 active site 547048012291 metal binding site 1 [ion binding]; metal-binding site 547048012292 5' ssDNA interaction site; other site 547048012293 3' ssDNA interaction site; other site 547048012294 metal binding site 2 [ion binding]; metal-binding site 547048012295 H3TH domain of bacteriophage T3, T4 RNase H, T5-5' nucleases, and homologs; Region: H3TH_T4-like; cd09899 547048012296 DNA binding site [nucleotide binding] 547048012297 metal binding site [ion binding]; metal-binding site 547048012298 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 547048012299 PHP domain; Region: PHP; pfam02811 547048012300 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 547048012301 active site 547048012302 PHP Thumb interface [polypeptide binding]; other site 547048012303 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 547048012304 Uracil DNA glycosylase superfamily; Region: UDG; pfam03167 547048012305 MoxR-like ATPases [General function prediction only]; Region: COG0714 547048012306 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 547048012307 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 547048012308 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 547048012309 Cobalamin biosynthesis protein CobT VWA domain; Region: CobT_C; pfam11775 547048012310 metal ion-dependent adhesion site (MIDAS); other site 547048012311 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 547048012312 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 547048012313 active site 547048012314 DNA binding site [nucleotide binding] 547048012315 Int/Topo IB signature motif; other site 547048012316 Caf1 Capsule antigen; Region: Antig_Caf1; pfam09255 547048012317 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 547048012318 PapC N-terminal domain; Region: PapC_N; pfam13954 547048012319 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 547048012320 PapC C-terminal domain; Region: PapC_C; pfam13953 547048012321 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 547048012322 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 547048012323 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 547048012324 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 547048012325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 547048012326 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 547048012327 Prominin; Region: Prominin; pfam05478 547048012328 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 547048012329 DNA binding site [nucleotide binding] 547048012330 ATP-dependent DNA ligase; Region: PHA00454 547048012331 active site 547048012332 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 547048012333 DNA binding site [nucleotide binding] 547048012334 transposase/IS protein; Provisional; Region: PRK09183 547048012335 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048012336 Walker A motif; other site 547048012337 ATP binding site [chemical binding]; other site 547048012338 Walker B motif; other site 547048012339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 547048012340 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 547048012341 DNA-binding interface [nucleotide binding]; DNA binding site 547048012342 Integrase core domain; Region: rve; pfam00665 547048012343 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 547048012344 ParB-like nuclease domain; Region: ParBc; pfam02195 547048012345 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 547048012346 Antirestriction protein [General function prediction only]; Region: ArdA; COG4734 547048012347 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 547048012348 putative methylase; Provisional; Region: PRK13699 547048012349 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 547048012350 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 547048012351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 547048012352 Walker A motif; other site 547048012353 ATP binding site [chemical binding]; other site 547048012354 Walker B motif; other site 547048012355 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 547048012356 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 547048012357 ParB-like nuclease domain; Region: ParB; smart00470 547048012358 ParB family; Region: ParB; pfam08775 547048012359 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 547048012360 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 547048012361 P-loop; other site 547048012362 Magnesium ion binding site [ion binding]; other site 547048012363 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 547048012364 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 547048012365 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 547048012366 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 547048012367 catalytic residues [active] 547048012368 catalytic nucleophile [active] 547048012369 Uncharacterized conserved protein [Function unknown]; Region: COG5464 547048012370 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 547048012371 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 547048012372 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 547048012373 PLD-like domain; Region: PLDc_2; pfam13091 547048012374 putative active site [active] 547048012375 catalytic site [active] 547048012376 Putative catalytic domain, repeat 1, of Yersinia pestis murine toxin-like proteins; Region: PLDc_Ymt_1; cd09150 547048012377 putative active site [active] 547048012378 catalytic site [active] 547048012379 Putative catalytic domain, repeat 2, of Yersinia pestis murine toxin-like proteins; Region: PLDc_Ymt_2; cd09151 547048012380 PLD-like domain; Region: PLDc_2; pfam13091 547048012381 putative active site [active] 547048012382 catalytic site [active] 547048012383 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 547048012384 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 547048012385 Uncharacterized conserved protein [Function unknown]; Region: COG5464 547048012386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 547048012387 Transposase; Region: DEDD_Tnp_IS110; pfam01548 547048012388 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 547048012389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 547048012390 MULE transposase domain; Region: MULE; pfam10551 547048012391 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643