-- dump date 20120504_151800 -- class Genbank::misc_feature -- table misc_feature_note -- id note 221988000001 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 221988000002 MgtC family; Region: MgtC; pfam02308 221988000003 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 221988000004 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; cl12031 221988000005 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 221988000006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000007 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 221988000008 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 221988000009 FtsX-like permease family; Region: FtsX; cl15850 221988000010 Type II (General) Secretory Pathway (IISP) Family protein; Region: 3a0501s02; TIGR00960 221988000011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000012 Walker A/P-loop; other site 221988000013 ATP binding site [chemical binding]; other site 221988000014 Q-loop/lid; other site 221988000015 ABC transporter signature motif; other site 221988000016 Walker B; other site 221988000017 D-loop; other site 221988000018 H-loop/switch region; other site 221988000019 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988000020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000021 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 221988000022 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 221988000023 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 221988000024 aspartate racemase; Region: asp_race; TIGR00035 221988000025 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 221988000026 putative active site [active] 221988000027 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 221988000028 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 221988000029 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 221988000030 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 cysteine...; Region: CysQ; cd01638 221988000031 active site 221988000032 oligopeptide transporters, OPT superfamily; Region: OPT_sfam; TIGR00728 221988000033 OPT oligopeptide transporter protein; Region: OPT; cl14607 221988000034 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 221988000035 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 221988000036 ADP-ribose binding site [chemical binding]; other site 221988000037 dimer interface [polypeptide binding]; other site 221988000038 active site 221988000039 nudix motif; other site 221988000040 metal binding site [ion binding]; metal-binding site 221988000041 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 221988000042 active site 221988000043 dimer interface [polypeptide binding]; other site 221988000044 magnesium binding site [ion binding]; other site 221988000045 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 221988000046 active site 221988000047 phosphorylation site [posttranslational modification] 221988000048 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 221988000049 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 221988000050 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 221988000051 active site 221988000052 P-loop; other site 221988000053 phosphorylation site [posttranslational modification] 221988000054 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988000055 transcriptional repressor UlaR; Provisional; Region: PRK13509 221988000056 Helix-turn-helix domains; Region: HTH; cl00088 221988000057 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988000058 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 221988000059 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 221988000060 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221988000061 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 221988000062 DNA binding residues [nucleotide binding] 221988000063 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 221988000064 gating phenylalanine in ion channel; other site 221988000065 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 221988000066 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 221988000067 FAD binding domain; Region: FAD_binding_4; pfam01565 221988000068 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 221988000069 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 221988000070 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 221988000071 putative active site [active] 221988000072 dimerization interface [polypeptide binding]; other site 221988000073 putative tRNAtyr binding site [nucleotide binding]; other site 221988000074 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 221988000075 hypothetical protein; Provisional; Region: PRK01752 221988000076 SEC-C motif; Region: SEC-C; pfam02810 221988000077 SEC-C motif; Region: SEC-C; pfam02810 221988000078 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 221988000079 Domain of unknown function DUF87; Region: DUF87; pfam01935 221988000080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000081 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 221988000082 Helix-turn-helix domains; Region: HTH; cl00088 221988000083 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 221988000084 dimer interface [polypeptide binding]; other site 221988000085 active site 221988000086 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 221988000087 oxaloacetate decarboxylase; Provisional; Region: PRK14040 221988000088 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 221988000089 active site 221988000090 catalytic residues [active] 221988000091 metal binding site [ion binding]; metal-binding site 221988000092 homodimer binding site [polypeptide binding]; other site 221988000093 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 221988000094 carboxyltransferase (CT) interaction site; other site 221988000095 biotinylation site [posttranslational modification]; other site 221988000096 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 221988000097 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 221988000098 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 221988000099 Helix-turn-helix domains; Region: HTH; cl00088 221988000100 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 221988000101 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 221988000102 putative dimerization interface [polypeptide binding]; other site 221988000103 ketol-acid reductoisomerase; Validated; Region: PRK05225 221988000104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000105 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 221988000106 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 221988000107 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 221988000108 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; cl00214 221988000109 intersubunit interface [polypeptide binding]; other site 221988000110 active site 221988000111 Zn2+ binding site [ion binding]; other site 221988000112 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 221988000113 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 221988000114 AP (apurinic/apyrimidinic) site pocket; other site 221988000115 DNA interaction; other site 221988000116 Metal-binding active site; metal-binding site 221988000117 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 221988000118 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 221988000119 putative N- and C-terminal domain interface [polypeptide binding]; other site 221988000120 putative active site [active] 221988000121 putative MgATP binding site [chemical binding]; other site 221988000122 catalytic site [active] 221988000123 metal binding site [ion binding]; metal-binding site 221988000124 putative xylulose binding site [chemical binding]; other site 221988000125 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988000126 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988000127 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988000128 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988000129 DctM-like transporters; Region: DctM; pfam06808 221988000130 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988000131 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 221988000132 Domain of unknown function (DUF386); Region: DUF386; cl01047 221988000133 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 221988000134 Transcriptional regulator [Transcription]; Region: IclR; COG1414 221988000135 Helix-turn-helix domains; Region: HTH; cl00088 221988000136 Bacterial transcriptional regulator; Region: IclR; pfam01614 221988000137 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 221988000138 active site 221988000139 dimer interface [polypeptide binding]; other site 221988000140 magnesium binding site [ion binding]; other site 221988000141 transketolase; Reviewed; Region: PRK12753 221988000142 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 221988000143 TPP-binding site [chemical binding]; other site 221988000144 dimer interface [polypeptide binding]; other site 221988000145 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 221988000146 PYR/PP interface [polypeptide binding]; other site 221988000147 dimer interface [polypeptide binding]; other site 221988000148 TPP binding site [chemical binding]; other site 221988000149 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221988000150 L-arabinose isomerase; Provisional; Region: PRK02929 221988000151 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 221988000152 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 221988000153 trimer interface [polypeptide binding]; other site 221988000154 putative substrate binding site [chemical binding]; other site 221988000155 putative metal binding site [ion binding]; other site 221988000156 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 221988000157 putative N- and C-terminal domain interface [polypeptide binding]; other site 221988000158 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 221988000159 putative active site [active] 221988000160 putative MgATP binding site [chemical binding]; other site 221988000161 catalytic site [active] 221988000162 metal binding site [ion binding]; metal-binding site 221988000163 putative carbohydrate binding site [chemical binding]; other site 221988000164 MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar...; Region: MIT; cl00299 221988000165 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 221988000166 Cupin domain; Region: Cupin_2; cl09118 221988000167 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988000168 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988000169 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 221988000170 TM-ABC transporter signature motif; other site 221988000171 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 221988000172 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 221988000173 Walker A/P-loop; other site 221988000174 ATP binding site [chemical binding]; other site 221988000175 Q-loop/lid; other site 221988000176 ABC transporter signature motif; other site 221988000177 Walker B; other site 221988000178 D-loop; other site 221988000179 H-loop/switch region; other site 221988000180 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 221988000181 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 221988000182 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 221988000183 ligand binding site [chemical binding]; other site 221988000184 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 221988000185 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 221988000186 active site 221988000187 metal binding site [ion binding]; metal-binding site 221988000188 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 221988000189 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 221988000190 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 221988000191 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 221988000192 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 221988000193 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 221988000194 inhibitor site; inhibition site 221988000195 active site 221988000196 dimer interface [polypeptide binding]; other site 221988000197 catalytic residue [active] 221988000198 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 221988000199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000200 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 221988000201 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 221988000202 putative active site [active] 221988000203 metal binding site [ion binding]; metal-binding site 221988000204 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 221988000205 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 221988000206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221988000207 NMT1-like family; Region: NMT1_2; cl15260 221988000208 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 221988000209 Helix-turn-helix domains; Region: HTH; cl00088 221988000210 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988000211 Phage Tail Collar Domain; Region: Collar; pfam07484 221988000212 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 221988000213 Baseplate J-like protein; Region: Baseplate_J; cl01294 221988000214 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 221988000215 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 221988000216 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 221988000217 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 221988000218 Phage Tail Protein X; Region: Phage_tail_X; cl02088 221988000219 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 221988000220 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 221988000221 Phage-related protein [Function unknown]; Region: COG5412 221988000222 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 221988000223 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 221988000224 Phage tail tube protein FII; Region: Phage_tube; cl01390 221988000225 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 221988000226 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 221988000227 Gp37 protein; Region: Gp37; pfam09646 221988000228 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 221988000229 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 221988000230 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 221988000231 Protein of unknown function (DUF935); Region: DUF935; pfam06074 221988000232 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 221988000233 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 221988000234 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 221988000235 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 221988000236 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 221988000237 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 221988000238 non-specific DNA binding site [nucleotide binding]; other site 221988000239 salt bridge; other site 221988000240 sequence-specific DNA binding site [nucleotide binding]; other site 221988000241 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 221988000242 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 221988000243 Helix-turn-helix domains; Region: HTH; cl00088 221988000244 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 221988000245 Integrase core domain; Region: rve; cl01316 221988000246 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 221988000247 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 221988000248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000249 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 221988000250 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 221988000251 Mor transcription activator family; Region: Mor; cl02360 221988000252 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 221988000253 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 221988000254 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 221988000255 RmuC family; Region: RmuC; pfam02646 221988000256 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221988000257 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221988000258 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221988000259 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 221988000260 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 221988000261 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 221988000262 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 221988000263 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 221988000264 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 221988000265 shikimate binding site; other site 221988000266 NAD(P) binding site [chemical binding]; other site 221988000267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000268 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 221988000269 NAD(P) binding site [chemical binding]; other site 221988000270 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 221988000271 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 221988000272 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 221988000273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000274 Walker A/P-loop; other site 221988000275 ATP binding site [chemical binding]; other site 221988000276 Q-loop/lid; other site 221988000277 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988000278 ABC transporter; Region: ABC_tran_2; pfam12848 221988000279 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988000280 MarC family integral membrane protein; Region: MarC; cl00919 221988000281 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 221988000282 S-adenosylmethionine binding site [chemical binding]; other site 221988000283 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 221988000284 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 221988000285 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 221988000286 P loop; other site 221988000287 GTP binding site [chemical binding]; other site 221988000288 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 221988000289 putative active site [active] 221988000290 metal binding site [ion binding]; metal-binding site 221988000291 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 221988000292 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 221988000293 NADP binding site [chemical binding]; other site 221988000294 Helix-turn-helix domains; Region: HTH; cl00088 221988000295 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 221988000296 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 221988000297 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 221988000298 active site 221988000299 nucleophile elbow; other site 221988000300 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 221988000301 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 221988000302 NADP binding site [chemical binding]; other site 221988000303 homopentamer interface [polypeptide binding]; other site 221988000304 substrate binding site [chemical binding]; other site 221988000305 active site 221988000306 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221988000307 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988000308 DNA binding site [nucleotide binding] 221988000309 domain linker motif; other site 221988000310 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 221988000311 putative ligand binding site [chemical binding]; other site 221988000312 putative dimerization interface [polypeptide binding]; other site 221988000313 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 221988000314 active site 221988000315 phosphorylation site [posttranslational modification] 221988000316 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 221988000317 active site 221988000318 P-loop; other site 221988000319 phosphorylation site [posttranslational modification] 221988000320 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 221988000321 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 221988000322 intersubunit interface [polypeptide binding]; other site 221988000323 active site 221988000324 catalytic residue [active] 221988000325 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 221988000326 Helix-turn-helix domains; Region: HTH; cl00088 221988000327 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 221988000328 Helix-turn-helix domains; Region: HTH; cl00088 221988000329 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 221988000330 dimerization interface [polypeptide binding]; other site 221988000331 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 221988000332 catalytic triad [active] 221988000333 dimer interface [polypeptide binding]; other site 221988000334 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 221988000335 GSH binding site [chemical binding]; other site 221988000336 catalytic residues [active] 221988000337 SlyX; Region: SlyX; cl01090 221988000338 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 221988000339 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 221988000340 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 221988000341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 221988000342 YheO-like PAS domain; Region: PAS_6; pfam08348 221988000343 Helix-turn-helix domains; Region: HTH; cl00088 221988000344 DsrE/DsrF-like family; Region: DrsE; cl00672 221988000345 DsrE/DsrF-like family; Region: DrsE; cl00672 221988000346 DsrE/DsrF-like family; Region: DrsE; cl00672 221988000347 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 221988000348 S17 interaction site [polypeptide binding]; other site 221988000349 S8 interaction site; other site 221988000350 16S rRNA interaction site [nucleotide binding]; other site 221988000351 streptomycin interaction site [chemical binding]; other site 221988000352 23S rRNA interaction site [nucleotide binding]; other site 221988000353 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 221988000354 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 221988000355 elongation factor G; Reviewed; Region: PRK00007 221988000356 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 221988000357 G1 box; other site 221988000358 putative GEF interaction site [polypeptide binding]; other site 221988000359 GTP/Mg2+ binding site [chemical binding]; other site 221988000360 Switch I region; other site 221988000361 G2 box; other site 221988000362 G3 box; other site 221988000363 Switch II region; other site 221988000364 G4 box; other site 221988000365 G5 box; other site 221988000366 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 221988000367 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 221988000368 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 221988000369 elongation factor Tu; Reviewed; Region: PRK00049 221988000370 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 221988000371 G1 box; other site 221988000372 GEF interaction site [polypeptide binding]; other site 221988000373 GTP/Mg2+ binding site [chemical binding]; other site 221988000374 Switch I region; other site 221988000375 G2 box; other site 221988000376 G3 box; other site 221988000377 Switch II region; other site 221988000378 G4 box; other site 221988000379 G5 box; other site 221988000380 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 221988000381 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 221988000382 Antibiotic Binding Site [chemical binding]; other site 221988000383 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 221988000384 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221988000385 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 221988000386 active site 221988000387 metal binding site [ion binding]; metal-binding site 221988000388 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 221988000389 non-specific DNA binding site [nucleotide binding]; other site 221988000390 salt bridge; other site 221988000391 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 221988000392 sequence-specific DNA binding site [nucleotide binding]; other site 221988000393 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 221988000394 active site 221988000395 (T/H)XGH motif; other site 221988000396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000397 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 221988000398 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 221988000399 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 221988000400 CPxP motif; other site 221988000401 hypothetical protein; Provisional; Region: PRK11568 221988000402 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 221988000403 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 221988000404 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 221988000405 Cation transport protein; Region: TrkH; cl10514 221988000406 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988000407 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221988000408 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 221988000409 DNA binding residues [nucleotide binding] 221988000410 putative dimer interface [polypeptide binding]; other site 221988000411 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221988000412 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 221988000413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221988000414 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221988000415 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 221988000416 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 221988000417 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 221988000418 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 221988000419 putative NADH binding site [chemical binding]; other site 221988000420 putative active site [active] 221988000421 nudix motif; other site 221988000422 putative metal binding site [ion binding]; other site 221988000423 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 221988000424 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 221988000425 substrate binding site [chemical binding]; other site 221988000426 active site 221988000427 Protein of unknown function (DUF416); Region: DUF416; cl01166 221988000428 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 221988000429 IHF dimer interface [polypeptide binding]; other site 221988000430 IHF - DNA interface [nucleotide binding]; other site 221988000431 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 221988000432 Helix-turn-helix domains; Region: HTH; cl00088 221988000433 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988000434 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 221988000435 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 221988000436 active site 221988000437 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 221988000438 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 221988000439 dimer interface [polypeptide binding]; other site 221988000440 active site 221988000441 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 221988000442 dimer interface [polypeptide binding]; other site 221988000443 active site 221988000444 benzoate transport; Region: 2A0115; TIGR00895 221988000445 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 221988000446 putative substrate translocation pore; other site 221988000447 Predicted membrane protein [Function unknown]; Region: COG1971 221988000448 Domain of unknown function DUF; Region: DUF204; pfam02659 221988000449 Domain of unknown function DUF; Region: DUF204; pfam02659 221988000450 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 221988000451 ATP-dependent helicase HepA; Validated; Region: PRK04914 221988000452 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 221988000453 ATP binding site [chemical binding]; other site 221988000454 putative Mg++ binding site [ion binding]; other site 221988000455 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 221988000456 nucleotide binding region [chemical binding]; other site 221988000457 ATP-binding site [chemical binding]; other site 221988000458 glutamate dehydrogenase; Provisional; Region: PRK09414 221988000459 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 221988000460 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 221988000461 NAD(P) binding site [chemical binding]; other site 221988000462 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221988000463 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 221988000464 substrate binding site [chemical binding]; other site 221988000465 dimer interface [polypeptide binding]; other site 221988000466 ATP binding site [chemical binding]; other site 221988000467 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 221988000468 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 221988000469 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 221988000470 putative active site [active] 221988000471 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 221988000472 TM-ABC transporter signature motif; other site 221988000473 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 221988000474 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 221988000475 Walker A/P-loop; other site 221988000476 ATP binding site [chemical binding]; other site 221988000477 Q-loop/lid; other site 221988000478 ABC transporter signature motif; other site 221988000479 Walker B; other site 221988000480 D-loop; other site 221988000481 H-loop/switch region; other site 221988000482 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 221988000483 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 221988000484 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 221988000485 ligand binding site [chemical binding]; other site 221988000486 dimerization interface [polypeptide binding]; other site 221988000487 zinc binding site [ion binding]; other site 221988000488 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 221988000489 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 221988000490 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 221988000491 S-adenosylmethionine binding site [chemical binding]; other site 221988000492 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 221988000493 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 221988000494 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 221988000495 putative homodimer interface [polypeptide binding]; other site 221988000496 KOW motif; Region: KOW; cl00354 221988000497 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 221988000498 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 221988000499 23S rRNA interface [nucleotide binding]; other site 221988000500 L7/L12 interface [polypeptide binding]; other site 221988000501 putative thiostrepton binding site; other site 221988000502 L25 interface [polypeptide binding]; other site 221988000503 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 221988000504 mRNA/rRNA interface [nucleotide binding]; other site 221988000505 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 221988000506 23S rRNA interface [nucleotide binding]; other site 221988000507 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 221988000508 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 221988000509 core dimer interface [polypeptide binding]; other site 221988000510 peripheral dimer interface [polypeptide binding]; other site 221988000511 L10 interface [polypeptide binding]; other site 221988000512 L11 interface [polypeptide binding]; other site 221988000513 putative EF-Tu interaction site [polypeptide binding]; other site 221988000514 putative EF-G interaction site [polypeptide binding]; other site 221988000515 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; cl04593 221988000516 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 221988000517 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 221988000518 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 221988000519 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; cl04593 221988000520 RPB11 interaction site [polypeptide binding]; other site 221988000521 RPB12 interaction site [polypeptide binding]; other site 221988000522 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 221988000523 RPB1 interaction site [polypeptide binding]; other site 221988000524 RPB11 interaction site [polypeptide binding]; other site 221988000525 RPB10 interaction site [polypeptide binding]; other site 221988000526 RPB3 interaction site [polypeptide binding]; other site 221988000527 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 221988000528 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 221988000529 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 221988000530 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 221988000531 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 221988000532 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 221988000533 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 221988000534 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 221988000535 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 221988000536 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 221988000537 DNA binding site [nucleotide binding] 221988000538 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 221988000539 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 221988000540 transcription-repair coupling factor; Provisional; Region: PRK10689 221988000541 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 221988000542 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 221988000543 ATP binding site [chemical binding]; other site 221988000544 putative Mg++ binding site [ion binding]; other site 221988000545 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 221988000546 nucleotide binding region [chemical binding]; other site 221988000547 ATP-binding site [chemical binding]; other site 221988000548 TRCF domain; Region: TRCF; cl04088 221988000549 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 221988000550 dimer interface [polypeptide binding]; other site 221988000551 active site 221988000552 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 221988000553 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 221988000554 Walker A/P-loop; other site 221988000555 ATP binding site [chemical binding]; other site 221988000556 Q-loop/lid; other site 221988000557 ABC transporter signature motif; other site 221988000558 Walker B; other site 221988000559 D-loop; other site 221988000560 H-loop/switch region; other site 221988000561 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 221988000562 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 221988000563 substrate binding pocket [chemical binding]; other site 221988000564 membrane-bound complex binding site; other site 221988000565 hinge residues; other site 221988000566 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221988000567 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 221988000568 dimer interface [polypeptide binding]; other site 221988000569 conserved gate region; other site 221988000570 putative PBP binding loops; other site 221988000571 ABC-ATPase subunit interface; other site 221988000572 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 221988000573 dimer interface [polypeptide binding]; other site 221988000574 conserved gate region; other site 221988000575 putative PBP binding loops; other site 221988000576 ABC-ATPase subunit interface; other site 221988000577 Haem-binding domain; Region: Haem_bd; pfam14376 221988000578 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 221988000579 Protein of unknown function (DUF423); Region: DUF423; cl01008 221988000580 DNA polymerase I; Provisional; Region: PRK05755 221988000581 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 221988000582 active site 221988000583 metal binding site 1 [ion binding]; metal-binding site 221988000584 putative 5' ssDNA interaction site; other site 221988000585 metal binding site 3; metal-binding site 221988000586 metal binding site 2 [ion binding]; metal-binding site 221988000587 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 221988000588 putative DNA binding site [nucleotide binding]; other site 221988000589 putative metal binding site [ion binding]; other site 221988000590 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 221988000591 active site 221988000592 catalytic site [active] 221988000593 substrate binding site [chemical binding]; other site 221988000594 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 221988000595 active site 221988000596 DNA binding site [nucleotide binding] 221988000597 catalytic site [active] 221988000598 BCCT family transporter; Region: BCCT; cl00569 221988000599 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 221988000600 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 221988000601 FeS/SAM binding site; other site 221988000602 HemN C-terminal domain; Region: HemN_C; pfam06969 221988000603 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 221988000604 Der GTPase activator (YihI); Region: YihI; cl01172 221988000605 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 221988000606 active site 221988000607 acetylornithine deacetylase; Provisional; Region: PRK05111 221988000608 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 221988000609 metal binding site [ion binding]; metal-binding site 221988000610 putative dimer interface [polypeptide binding]; other site 221988000611 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 221988000612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988000613 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 221988000614 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 221988000615 nucleotide binding site [chemical binding]; other site 221988000616 N-acetyl-L-glutamate binding site [chemical binding]; other site 221988000617 argininosuccinate lyase; Provisional; Region: PRK04833 221988000618 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 221988000619 active sites [active] 221988000620 tetramer interface [polypeptide binding]; other site 221988000621 RNA methyltransferase, RsmE family; Region: TIGR00046 221988000622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 221988000623 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 221988000624 Recombination protein O N terminal; Region: RecO_N; cl15812 221988000625 Recombination protein O C terminal; Region: RecO_C; pfam02565 221988000626 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 221988000627 TRAM domain; Region: TRAM; cl01282 221988000628 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 221988000629 S-adenosylmethionine binding site [chemical binding]; other site 221988000630 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 221988000631 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 221988000632 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 221988000633 synthetase active site [active] 221988000634 NTP binding site [chemical binding]; other site 221988000635 metal binding site [ion binding]; metal-binding site 221988000636 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 221988000637 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 221988000638 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 221988000639 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 221988000640 O-Antigen ligase; Region: Wzy_C; cl04850 221988000641 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 221988000642 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 221988000643 active site 221988000644 intersubunit interface [polypeptide binding]; other site 221988000645 zinc binding site [ion binding]; other site 221988000646 Na+ binding site [ion binding]; other site 221988000647 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 221988000648 Phosphoglycerate kinase; Region: PGK; pfam00162 221988000649 substrate binding site [chemical binding]; other site 221988000650 hinge regions; other site 221988000651 ADP binding site [chemical binding]; other site 221988000652 catalytic site [active] 221988000653 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 221988000654 CAS motifs; other site 221988000655 active site 221988000656 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 221988000657 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 221988000658 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 221988000659 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 221988000660 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 221988000661 domain interface [polypeptide binding]; other site 221988000662 putative active site [active] 221988000663 catalytic site [active] 221988000664 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 221988000665 domain interface [polypeptide binding]; other site 221988000666 putative active site [active] 221988000667 catalytic site [active] 221988000668 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 221988000669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988000670 active site 221988000671 ribonuclease PH; Reviewed; Region: rph; PRK00173 221988000672 Ribonuclease PH; Region: RNase_PH_bact; cd11362 221988000673 hexamer interface [polypeptide binding]; other site 221988000674 active site 221988000675 hypothetical protein; Provisional; Region: PRK11820 221988000676 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 221988000677 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 221988000678 putative global regulator; Reviewed; Region: PRK09559 221988000679 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 221988000680 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 221988000681 CTP synthetase; Validated; Region: pyrG; PRK05380 221988000682 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 221988000683 Catalytic site [active] 221988000684 active site 221988000685 UTP binding site [chemical binding]; other site 221988000686 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 221988000687 active site 221988000688 putative oxyanion hole; other site 221988000689 catalytic triad [active] 221988000690 enolase; Provisional; Region: eno; PRK00077 221988000691 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 221988000692 dimer interface [polypeptide binding]; other site 221988000693 metal binding site [ion binding]; metal-binding site 221988000694 substrate binding pocket [chemical binding]; other site 221988000695 putative glutathione S-transferase; Provisional; Region: PRK10357 221988000696 GST_N family, unknown subfamily 3; 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_3; cd03049 221988000697 putative C-terminal domain interface [polypeptide binding]; other site 221988000698 putative GSH binding site (G-site) [chemical binding]; other site 221988000699 putative dimer interface [polypeptide binding]; other site 221988000700 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 221988000701 N-terminal domain interface [polypeptide binding]; other site 221988000702 dimer interface [polypeptide binding]; other site 221988000703 substrate binding pocket (H-site) [chemical binding]; other site 221988000704 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 221988000705 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_14; cd04672 221988000706 nudix motif; other site 221988000707 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; cl01770 221988000708 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 221988000709 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 221988000710 glutamine synthetase; Provisional; Region: glnA; PRK09469 221988000711 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 221988000712 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 221988000713 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 221988000714 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 221988000715 G1 box; other site 221988000716 putative GEF interaction site [polypeptide binding]; other site 221988000717 GTP/Mg2+ binding site [chemical binding]; other site 221988000718 Switch I region; other site 221988000719 G2 box; other site 221988000720 G3 box; other site 221988000721 Switch II region; other site 221988000722 G4 box; other site 221988000723 G5 box; other site 221988000724 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 221988000725 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 221988000726 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 221988000727 catalytic triad [active] 221988000728 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 221988000729 dihydrodipicolinate synthase; Region: dapA; TIGR00674 221988000730 dimer interface [polypeptide binding]; other site 221988000731 active site 221988000732 catalytic residue [active] 221988000733 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221988000734 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221988000735 Coenzyme A binding pocket [chemical binding]; other site 221988000736 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 221988000737 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 221988000738 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 221988000739 active site 221988000740 HslU subunit interaction site [polypeptide binding]; other site 221988000741 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 221988000742 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 221988000743 Walker A motif; other site 221988000744 ATP binding site [chemical binding]; other site 221988000745 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000746 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 221988000747 hemY protein; Region: hemY_coli; TIGR00540 221988000748 HemY protein N-terminus; Region: HemY_N; pfam07219 221988000749 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 221988000750 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 221988000751 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 221988000752 active site 221988000753 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 221988000754 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 221988000755 domain interfaces; other site 221988000756 active site 221988000757 adenylate cyclase; Provisional; Region: cyaA; PRK09450 221988000758 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 221988000759 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 221988000760 transcriptional regulator NarP; Provisional; Region: PRK10403 221988000761 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 221988000762 active site 221988000763 phosphorylation site [posttranslational modification] 221988000764 intermolecular recognition site; other site 221988000765 dimerization interface [polypeptide binding]; other site 221988000766 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 221988000767 DNA binding residues [nucleotide binding] 221988000768 dimerization interface [polypeptide binding]; other site 221988000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 221988000770 NMT1-like family; Region: NMT1_2; cl15260 221988000771 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 221988000772 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 221988000773 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 221988000774 inhibitor site; inhibition site 221988000775 active site 221988000776 dimer interface [polypeptide binding]; other site 221988000777 catalytic residue [active] 221988000778 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221988000779 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 221988000780 substrate binding site [chemical binding]; other site 221988000781 dimer interface [polypeptide binding]; other site 221988000782 ATP binding site [chemical binding]; other site 221988000783 transcriptional repressor RbsR; Provisional; Region: PRK10423 221988000784 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988000785 DNA binding site [nucleotide binding] 221988000786 domain linker motif; other site 221988000787 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 221988000788 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 221988000789 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988000790 Surface antigen; Region: Bac_surface_Ag; cl03097 221988000791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 221988000792 Family of unknown function (DUF490); Region: DUF490; pfam04357 221988000793 exopolyphosphatase; Provisional; Region: PRK10854 221988000794 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 221988000795 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; cl15357 221988000796 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 221988000797 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 221988000798 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; cl15357 221988000799 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 221988000800 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988000801 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 221988000802 hybrid cluster protein; Provisional; Region: PRK05290 221988000803 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 221988000804 ACS interaction site; other site 221988000805 CODH interaction site; other site 221988000806 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 221988000807 ACS interaction site; other site 221988000808 CODH interaction site; other site 221988000809 metal cluster binding site [ion binding]; other site 221988000810 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 221988000811 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 221988000812 FAD binding pocket [chemical binding]; other site 221988000813 FAD binding motif [chemical binding]; other site 221988000814 phosphate binding motif [ion binding]; other site 221988000815 beta-alpha-beta structure motif; other site 221988000816 NAD binding pocket [chemical binding]; other site 221988000817 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 221988000818 catalytic loop [active] 221988000819 iron binding site [ion binding]; other site 221988000820 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 221988000821 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 221988000822 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 221988000823 Flavin Reductases; Region: FlaRed; cl00801 221988000824 adenylosuccinate lyase; Provisional; Region: PRK09285 221988000825 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 221988000826 tetramer interface [polypeptide binding]; other site 221988000827 active site 221988000828 Protein of unknown function (DUF489); Region: DUF489; cl01097 221988000829 putative acetyltransferase; Provisional; Region: PRK03624 221988000830 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221988000831 Coenzyme A binding pocket [chemical binding]; other site 221988000832 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 221988000833 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 221988000834 Protein of unknown function (DUF539); Region: DUF539; cl01129 221988000835 ApbE family; Region: ApbE; cl00643 221988000836 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 221988000837 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 221988000838 FAD binding pocket [chemical binding]; other site 221988000839 FAD binding motif [chemical binding]; other site 221988000840 phosphate binding motif [ion binding]; other site 221988000841 beta-alpha-beta structure motif; other site 221988000842 NAD binding pocket [chemical binding]; other site 221988000843 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 221988000844 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 221988000845 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 221988000846 FMN-binding domain; Region: FMN_bind; cl01081 221988000847 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 221988000848 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 221988000849 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 221988000850 E3 interaction surface; other site 221988000851 lipoyl attachment site [posttranslational modification]; other site 221988000852 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 221988000853 BolA-like protein; Region: BolA; cl00386 221988000854 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 221988000855 murein transglycosylase C; Provisional; Region: mltC; PRK11671 221988000856 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 221988000857 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 catalyze...; Region: LT_GEWL; cd00254 221988000858 N-acetyl-D-glucosamine binding site [chemical binding]; other site 221988000859 catalytic residue [active] 221988000860 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 221988000861 adenine DNA glycosylase; Provisional; Region: PRK10880 221988000862 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 221988000863 minor groove reading motif; other site 221988000864 helix-hairpin-helix signature motif; other site 221988000865 substrate binding pocket [chemical binding]; other site 221988000866 active site 221988000867 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 221988000868 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 221988000869 DNA binding and oxoG recognition site [nucleotide binding] 221988000870 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; cl15754 221988000871 Protein with unknown function (DUF469); Region: DUF469; cl01237 221988000872 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 221988000873 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 221988000874 YGGT family; Region: YGGT; cl00508 221988000875 YGGT family; Region: YGGT; cl00508 221988000876 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 221988000877 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 221988000878 substrate binding site [chemical binding]; other site 221988000879 dimer interface [polypeptide binding]; other site 221988000880 catalytic triad [active] 221988000881 Protein of unknown function (DUF721); Region: DUF721; cl02324 221988000882 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 221988000883 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 221988000884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000885 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 221988000886 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 221988000887 nucleotide binding region [chemical binding]; other site 221988000888 ATP-binding site [chemical binding]; other site 221988000889 SEC-C motif; Region: SEC-C; pfam02810 221988000890 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 221988000891 active site 221988000892 8-oxo-dGMP binding site [chemical binding]; other site 221988000893 nudix motif; other site 221988000894 metal binding site [ion binding]; metal-binding site 221988000895 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 221988000896 Ligand Binding Site [chemical binding]; other site 221988000897 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988000898 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988000899 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 221988000900 NMT1-like family; Region: NMT1_2; cl15260 221988000901 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 221988000902 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 221988000903 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 221988000904 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 221988000905 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 221988000906 substrate binding site [chemical binding]; other site 221988000907 ligand binding site [chemical binding]; other site 221988000908 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 221988000909 substrate binding site [chemical binding]; other site 221988000910 GntP family permease; Region: GntP_permease; pfam02447 221988000911 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988000912 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988000913 transcriptional activator TtdR; Provisional; Region: PRK09801 221988000914 Helix-turn-helix domains; Region: HTH; cl00088 221988000915 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 221988000916 putative effector binding pocket; other site 221988000917 putative dimerization interface [polypeptide binding]; other site 221988000918 Lipopolysaccharide-assembly; Region: LptE; cl01125 221988000919 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 221988000920 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 221988000921 HIGH motif; other site 221988000922 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 221988000923 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221988000924 active site 221988000925 KMSKS motif; other site 221988000926 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 221988000927 tRNA binding surface [nucleotide binding]; other site 221988000928 OpgC protein; Region: OpgC_C; cl00792 221988000929 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 221988000930 metal-binding site [ion binding] 221988000931 MerT mercuric transport protein; Region: MerT; cl03578 221988000932 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 221988000933 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 221988000934 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 221988000935 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 221988000936 active site 221988000937 tetramer interface; other site 221988000938 phosphomannomutase CpsG; Provisional; Region: PRK15414 221988000939 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 221988000940 active site 221988000941 substrate binding site [chemical binding]; other site 221988000942 metal binding site [ion binding]; metal-binding site 221988000943 Global regulator protein family; Region: CsrA; cl00670 221988000944 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 221988000945 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 formation of...; Region: AlaRS_core; cd00673 221988000946 motif 1; other site 221988000947 active site 221988000948 motif 2; other site 221988000949 motif 3; other site 221988000950 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 221988000951 DHHA1 domain; Region: DHHA1; pfam02272 221988000952 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 221988000953 Ligand Binding Site [chemical binding]; other site 221988000954 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 221988000955 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 221988000956 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 221988000957 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 221988000958 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 A site; Region: RaiA; cd00552 221988000959 30S subunit binding site; other site 221988000960 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 221988000961 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 221988000962 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 221988000963 Domain of unknown function (DUF329); Region: DUF329; cl01144 221988000964 dephospho-CoA kinase; Region: TIGR00152 221988000965 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 221988000966 CoA-binding site [chemical binding]; other site 221988000967 ATP-binding [chemical binding]; other site 221988000968 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 221988000969 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 221988000970 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 221988000971 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 221988000972 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 221988000973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988000974 Walker A motif; other site 221988000975 ATP binding site [chemical binding]; other site 221988000976 Walker B motif; other site 221988000977 putative major pilin subunit; Provisional; Region: PRK10574 221988000978 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 221988000979 amidase catalytic site [active] 221988000980 Zn binding residues [ion binding]; other site 221988000981 substrate binding site [chemical binding]; other site 221988000982 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 221988000983 GTPase Era; Reviewed; Region: era; PRK00089 221988000984 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 221988000985 G1 box; other site 221988000986 GTP/Mg2+ binding site [chemical binding]; other site 221988000987 Switch I region; other site 221988000988 G2 box; other site 221988000989 Switch II region; other site 221988000990 G3 box; other site 221988000991 G4 box; other site 221988000992 G5 box; other site 221988000993 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 221988000994 ribonuclease III; Reviewed; Region: rnc; PRK00102 221988000995 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 221988000996 dimerization interface [polypeptide binding]; other site 221988000997 active site 221988000998 metal binding site [ion binding]; metal-binding site 221988000999 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 221988001000 dsRNA binding site [nucleotide binding]; other site 221988001001 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 221988001002 signal peptidase I; Provisional; Region: PRK10861 221988001003 Catalytic site [active] 221988001004 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 221988001005 signal peptidase I; Provisional; Region: PRK10861 221988001006 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 221988001007 Catalytic site [active] 221988001008 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 221988001009 GTP-binding protein LepA; Provisional; Region: PRK05433 221988001010 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 221988001011 G1 box; other site 221988001012 putative GEF interaction site [polypeptide binding]; other site 221988001013 GTP/Mg2+ binding site [chemical binding]; other site 221988001014 Switch I region; other site 221988001015 G2 box; other site 221988001016 G3 box; other site 221988001017 Switch II region; other site 221988001018 G4 box; other site 221988001019 G5 box; other site 221988001020 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 221988001021 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 221988001022 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 221988001023 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 221988001024 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 221988001025 ligand binding site [chemical binding]; other site 221988001026 active site 221988001027 UGI interface [polypeptide binding]; other site 221988001028 catalytic site [active] 221988001029 Protein of unknown function (DUF328); Region: DUF328; cl01143 221988001030 Cation efflux family; Region: Cation_efflux; cl00316 221988001031 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 221988001032 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 221988001033 active site 221988001034 ADP/pyrophosphate binding site [chemical binding]; other site 221988001035 dimerization interface [polypeptide binding]; other site 221988001036 allosteric effector site; other site 221988001037 fructose-1,6-bisphosphate binding site; other site 221988001038 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 221988001039 substrate binding site [chemical binding]; other site 221988001040 dimer interface [polypeptide binding]; other site 221988001041 catalytic triad [active] 221988001042 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 221988001043 Helix-turn-helix domains; Region: HTH; cl00088 221988001044 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988001045 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 221988001046 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 221988001047 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 221988001048 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 221988001049 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 221988001050 Phospholipid methyltransferase; Region: PEMT; cl00763 221988001051 putative metal dependent hydrolase; Provisional; Region: PRK11598 221988001052 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 221988001053 Sulfatase; Region: Sulfatase; cl10460 221988001054 superoxide dismutase; Provisional; Region: PRK10925 221988001055 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 221988001056 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 221988001057 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 221988001058 Malic enzyme, N-terminal domain; Region: malic; pfam00390 221988001059 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 221988001060 putative NAD(P) binding site [chemical binding]; other site 221988001061 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 221988001062 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 221988001063 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 221988001064 RNA binding surface [nucleotide binding]; other site 221988001065 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 221988001066 active site 221988001067 uracil binding [chemical binding]; other site 221988001068 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 221988001069 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 221988001070 putative substrate translocation pore; other site 221988001071 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 221988001072 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 221988001073 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988001074 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 221988001075 Walker A/P-loop; other site 221988001076 ATP binding site [chemical binding]; other site 221988001077 Q-loop/lid; other site 221988001078 ABC transporter signature motif; other site 221988001079 Walker B; other site 221988001080 D-loop; other site 221988001081 H-loop/switch region; other site 221988001082 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; cl15754 221988001083 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 221988001084 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 221988001085 S-adenosylmethionine binding site [chemical binding]; other site 221988001086 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 221988001087 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 221988001088 putative dimer interface [polypeptide binding]; other site 221988001089 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 221988001090 nucleotide binding site/active site [active] 221988001091 HIT family signature motif; other site 221988001092 catalytic residue [active] 221988001093 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 221988001094 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 221988001095 Pyruvate formate lyase 1; Region: PFL1; cd01678 221988001096 coenzyme A binding site [chemical binding]; other site 221988001097 active site 221988001098 catalytic residues [active] 221988001099 glycine loop; other site 221988001100 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 221988001101 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 221988001102 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 221988001103 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 221988001104 nucleoside/Zn binding site; other site 221988001105 dimer interface [polypeptide binding]; other site 221988001106 catalytic motif [active] 221988001107 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 221988001108 dimerization interface [polypeptide binding]; other site 221988001109 active site 221988001110 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 221988001111 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 221988001112 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 221988001113 putative active site [active] 221988001114 Ap4A binding site [chemical binding]; other site 221988001115 nudix motif; other site 221988001116 putative metal binding site [ion binding]; other site 221988001117 Mannitol repressor; Region: MtlR; cl11450 221988001118 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 221988001119 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 221988001120 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 221988001121 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 221988001122 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 221988001123 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 221988001124 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 221988001125 active site 221988001126 P-loop; other site 221988001127 phosphorylation site [posttranslational modification] 221988001128 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 221988001129 active site 221988001130 phosphorylation site [posttranslational modification] 221988001131 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 221988001132 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 221988001133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001134 Family description; Region: UvrD_C_2; cl15862 221988001135 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 221988001136 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 221988001137 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 221988001138 motif II; other site 221988001139 maltose O-acetyltransferase; Provisional; Region: PRK10092 221988001140 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 221988001141 active site 221988001142 substrate binding site [chemical binding]; other site 221988001143 trimer interface [polypeptide binding]; other site 221988001144 CoA binding site [chemical binding]; other site 221988001145 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 221988001146 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 221988001147 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 221988001148 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221988001149 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988001150 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 221988001151 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 221988001152 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 221988001153 RNA/DNA hybrid binding site [nucleotide binding]; other site 221988001154 active site 221988001155 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221988001156 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 221988001157 transmembrane helices; other site 221988001158 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; cl15357 221988001159 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; cl15357 221988001160 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 221988001161 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 221988001162 MPT binding site; other site 221988001163 trimer interface [polypeptide binding]; other site 221988001164 Nitrogen regulatory protein P-II; Region: P-II; cl00412 221988001165 Nitrogen regulatory protein P-II; Region: P-II; smart00938 221988001166 Cytochrome b562; Region: Cytochrom_B562; cl01546 221988001167 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 221988001168 Domain of unknown function DUF20; Region: UPF0118; pfam01594 221988001169 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 221988001170 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; cl15357 221988001171 fatty acid metabolism transcriptional regulator FadR; Region: fadR_gamma; TIGR02812 221988001172 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221988001173 DNA-binding site [nucleotide binding]; DNA binding site 221988001174 FCD domain; Region: FCD; cl11656 221988001175 NMT1-like family; Region: NMT1_2; cl15260 221988001176 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 221988001177 dimer interface [polypeptide binding]; other site 221988001178 conserved gate region; other site 221988001179 ABC-ATPase subunit interface; other site 221988001180 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 221988001181 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 221988001182 Walker A/P-loop; other site 221988001183 ATP binding site [chemical binding]; other site 221988001184 Q-loop/lid; other site 221988001185 ABC transporter signature motif; other site 221988001186 Walker B; other site 221988001187 D-loop; other site 221988001188 H-loop/switch region; other site 221988001189 NIL domain; Region: NIL; cl09633 221988001190 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 221988001191 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 221988001192 active site 221988001193 motif I; other site 221988001194 motif II; other site 221988001195 Peptidase family M48; Region: Peptidase_M48; cl12018 221988001196 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 221988001197 putative metal binding site; other site 221988001198 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 221988001199 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 221988001200 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 221988001201 putative active site [active] 221988001202 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 221988001203 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 221988001204 RimM N-terminal domain; Region: RimM; pfam01782 221988001205 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 221988001206 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 221988001207 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 221988001208 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 221988001209 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 221988001210 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 221988001211 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 221988001212 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 221988001213 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 221988001214 Ligand binding site; other site 221988001215 metal-binding site 221988001216 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 221988001217 primosome assembly protein PriA; Validated; Region: PRK05580 221988001218 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 221988001219 ATP binding site [chemical binding]; other site 221988001220 putative Mg++ binding site [ion binding]; other site 221988001221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001222 Sporulation related domain; Region: SPOR; cl10051 221988001223 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 221988001224 Sporulation related domain; Region: SPOR; cl10051 221988001225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221988001226 Helix-turn-helix domains; Region: HTH; cl00088 221988001227 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 221988001228 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988001229 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988001230 multidrug efflux protein; Reviewed; Region: PRK09579 221988001231 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 221988001232 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 221988001233 roof hairpin; other site 221988001234 oligomerisation interface [polypeptide binding]; other site 221988001235 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 221988001236 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 221988001237 ring oligomerisation interface [polypeptide binding]; other site 221988001238 ATP/Mg binding site [chemical binding]; other site 221988001239 stacking interactions; other site 221988001240 hinge regions; other site 221988001241 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 221988001242 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 221988001243 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 221988001244 active site 221988001245 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 221988001246 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988001247 Walker A/P-loop; other site 221988001248 ATP binding site [chemical binding]; other site 221988001249 Q-loop/lid; other site 221988001250 ABC transporter signature motif; other site 221988001251 Walker B; other site 221988001252 D-loop; other site 221988001253 H-loop/switch region; other site 221988001254 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988001255 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 221988001256 Walker A/P-loop; other site 221988001257 ATP binding site [chemical binding]; other site 221988001258 Q-loop/lid; other site 221988001259 ABC transporter signature motif; other site 221988001260 Walker B; other site 221988001261 D-loop; other site 221988001262 H-loop/switch region; other site 221988001263 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 221988001264 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 221988001265 dimer interface [polypeptide binding]; other site 221988001266 conserved gate region; other site 221988001267 putative PBP binding loops; other site 221988001268 ABC-ATPase subunit interface; other site 221988001269 nickel ABC transporter, permease subunit NikB; Region: nickel_nikB; TIGR02789 221988001270 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 221988001271 dimer interface [polypeptide binding]; other site 221988001272 conserved gate region; other site 221988001273 putative PBP binding loops; other site 221988001274 ABC-ATPase subunit interface; other site 221988001275 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221988001276 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 221988001277 substrate binding site [chemical binding]; other site 221988001278 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 221988001279 S-adenosylmethionine binding site [chemical binding]; other site 221988001280 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221988001281 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 221988001282 DNA binding residues [nucleotide binding] 221988001283 dimer interface [polypeptide binding]; other site 221988001284 putative metal binding site [ion binding]; other site 221988001285 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 221988001286 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 221988001287 dimer interface [polypeptide binding]; other site 221988001288 ssDNA binding site [nucleotide binding]; other site 221988001289 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221988001290 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 221988001291 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 221988001292 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 221988001293 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 221988001294 exoribonuclease R; Provisional; Region: PRK11642 221988001295 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 221988001296 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 221988001297 RNB domain; Region: RNB; pfam00773 221988001298 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 play an important...; Region: S1_RNase_R; cd04471 221988001299 RNA binding site [nucleotide binding]; other site 221988001300 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 221988001301 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 221988001302 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 221988001303 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 221988001304 Cell division protein ZapA; Region: ZapA; cl01146 221988001305 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 221988001306 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 221988001307 proline aminopeptidase P II; Provisional; Region: PRK10879 221988001308 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 221988001309 active site 221988001310 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 221988001311 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 221988001312 trmE is a tRNA modification GTPase; Region: trmE; cd04164 221988001313 G1 box; other site 221988001314 GTP/Mg2+ binding site [chemical binding]; other site 221988001315 Switch I region; other site 221988001316 G2 box; other site 221988001317 Switch II region; other site 221988001318 G3 box; other site 221988001319 G4 box; other site 221988001320 G5 box; other site 221988001321 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 221988001322 membrane protein insertase; Provisional; Region: PRK01318 221988001323 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 221988001324 Haemolytic domain; Region: Haemolytic; cl00506 221988001325 Ribonuclease P; Region: Ribonuclease_P; cl00457 221988001326 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 221988001327 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 221988001328 DnaA N-terminal domain; Region: DnaA_N; pfam11638 221988001329 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 221988001330 Walker A motif; other site 221988001331 ATP binding site [chemical binding]; other site 221988001332 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001333 Walker B motif; other site 221988001334 arginine finger; other site 221988001335 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 221988001336 DnaA box-binding interface [nucleotide binding]; other site 221988001337 DNA polymerase III subunit beta; Validated; Region: PRK05643 221988001338 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 221988001339 putative DNA binding surface [nucleotide binding]; other site 221988001340 dimer interface [polypeptide binding]; other site 221988001341 beta-clamp/clamp loader binding surface; other site 221988001342 beta-clamp/translesion DNA polymerase binding surface; other site 221988001343 recF protein; Region: recf; TIGR00611 221988001344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001345 Walker A/P-loop; other site 221988001346 ATP binding site [chemical binding]; other site 221988001347 Q-loop/lid; other site 221988001348 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001349 ABC transporter signature motif; other site 221988001350 Walker B; other site 221988001351 D-loop; other site 221988001352 H-loop/switch region; other site 221988001353 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 221988001354 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 221988001355 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 221988001356 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 221988001357 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 221988001358 HIGH motif; other site 221988001359 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 221988001360 active site 221988001361 KMSKS motif; other site 221988001362 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 221988001363 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 221988001364 RNase E interface [polypeptide binding]; other site 221988001365 trimer interface [polypeptide binding]; other site 221988001366 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 221988001367 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 221988001368 RNase E interface [polypeptide binding]; other site 221988001369 trimer interface [polypeptide binding]; other site 221988001370 active site 221988001371 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 221988001372 putative nucleic acid binding region [nucleotide binding]; other site 221988001373 G-X-X-G motif; other site 221988001374 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 221988001375 RNA binding site [nucleotide binding]; other site 221988001376 domain interface; other site 221988001377 lipoprotein NlpI; Provisional; Region: PRK11189 221988001378 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 221988001379 binding surface 221988001380 TPR motif; other site 221988001381 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 221988001382 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 221988001383 ATP binding site [chemical binding]; other site 221988001384 Mg++ binding site [ion binding]; other site 221988001385 motif III; other site 221988001386 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 221988001387 nucleotide binding region [chemical binding]; other site 221988001388 ATP-binding site [chemical binding]; other site 221988001389 DbpA RNA binding domain; Region: DbpA; pfam03880 221988001390 putative transporter; Provisional; Region: PRK11660 221988001391 Sulfate transporter family; Region: Sulfate_transp; cl15842 221988001392 Sulfate transporter family; Region: Sulfate_transp; cl15842 221988001393 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 221988001394 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 221988001395 benzoate transport; Region: 2A0115; TIGR00895 221988001396 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 221988001397 putative substrate translocation pore; other site 221988001398 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 221988001399 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 221988001400 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 221988001401 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 221988001402 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 221988001403 dimer interface [polypeptide binding]; other site 221988001404 allosteric magnesium binding site [ion binding]; other site 221988001405 active site 221988001406 aspartate-rich active site metal binding site; other site 221988001407 Schiff base residues; other site 221988001408 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 221988001409 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 221988001410 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 221988001411 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 221988001412 FeS/SAM binding site; other site 221988001413 elongation factor P; Validated; Region: PRK00529 221988001414 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 221988001415 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 221988001416 RNA binding site [nucleotide binding]; other site 221988001417 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 221988001418 RNA binding site [nucleotide binding]; other site 221988001419 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221988001420 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 221988001421 putative active site [active] 221988001422 putative metal binding site [ion binding]; other site 221988001423 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 221988001424 putative acyl-acceptor binding pocket; other site 221988001425 FtsI repressor; Provisional; Region: PRK10883 221988001426 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 221988001427 Protein of unknown function (DUF554); Region: DUF554; cl00784 221988001428 Gram-negative bacterial tonB protein; Region: TonB; cl10048 221988001429 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 221988001430 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 221988001431 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 221988001432 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 221988001433 N-terminal plug; other site 221988001434 ligand-binding site [chemical binding]; other site 221988001435 hypothetical protein; Provisional; Region: PRK11573 221988001436 Domain of unknown function DUF21; Region: DUF21; pfam01595 221988001437 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 221988001438 Transporter associated domain; Region: CorC_HlyC; cl08393 221988001439 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221988001440 signal recognition particle protein; Provisional; Region: PRK10867 221988001441 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 221988001442 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 221988001443 P loop; other site 221988001444 GTP binding site [chemical binding]; other site 221988001445 Signal peptide binding domain; Region: SRP_SPB; pfam02978 221988001446 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 221988001447 Membrane transport protein; Region: Mem_trans; cl09117 221988001448 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 221988001449 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 221988001450 motif II; other site 221988001451 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 221988001452 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 221988001453 active site 221988001454 Int/Topo IB signature motif; other site 221988001455 FCD domain; Region: FCD; cl11656 221988001456 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 221988001457 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 221988001458 putative NAD(P) binding site [chemical binding]; other site 221988001459 catalytic Zn binding site [ion binding]; other site 221988001460 structural Zn binding site [ion binding]; other site 221988001461 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988001462 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988001463 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 221988001464 DctM-like transporters; Region: DctM; pfam06808 221988001465 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988001466 altronate oxidoreductase; Provisional; Region: PRK03643 221988001467 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 221988001468 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 221988001469 SAF domain; Region: SAF; cl00555 221988001470 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 221988001471 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 221988001472 Helix-turn-helix domains; Region: HTH; cl00088 221988001473 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 221988001474 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 221988001475 FMN binding site [chemical binding]; other site 221988001476 active site 221988001477 catalytic residues [active] 221988001478 substrate binding site [chemical binding]; other site 221988001479 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 221988001480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988001481 EamA-like transporter family; Region: EamA; cl01037 221988001482 mannonate dehydratase; Provisional; Region: PRK03906 221988001483 mannonate dehydratase; Region: uxuA; TIGR00695 221988001484 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 221988001485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 221988001486 DNA-binding site [nucleotide binding]; DNA binding site 221988001487 FCD domain; Region: FCD; cl11656 221988001488 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 221988001489 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 221988001490 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 221988001491 putative active site [active] 221988001492 putative catalytic site [active] 221988001493 DctM-like transporters; Region: DctM; pfam06808 221988001494 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988001495 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 221988001496 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988001497 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988001498 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 221988001499 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 221988001500 putative NAD(P) binding site [chemical binding]; other site 221988001501 active site 221988001502 Glucuronate isomerase; Region: UxaC; cl00829 221988001503 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221988001504 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 221988001505 substrate binding site [chemical binding]; other site 221988001506 ATP binding site [chemical binding]; other site 221988001507 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 221988001508 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 221988001509 active site 221988001510 intersubunit interface [polypeptide binding]; other site 221988001511 catalytic residue [active] 221988001512 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 221988001513 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221988001514 active site 221988001515 metal binding site [ion binding]; metal-binding site 221988001516 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 221988001517 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 221988001518 Walker A/P-loop; other site 221988001519 ATP binding site [chemical binding]; other site 221988001520 Q-loop/lid; other site 221988001521 ABC transporter signature motif; other site 221988001522 Walker B; other site 221988001523 D-loop; other site 221988001524 H-loop/switch region; other site 221988001525 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 221988001526 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 221988001527 dimer interface [polypeptide binding]; other site 221988001528 conserved gate region; other site 221988001529 putative PBP binding loops; other site 221988001530 ABC-ATPase subunit interface; other site 221988001531 NMT1-like family; Region: NMT1_2; cl15260 221988001532 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 221988001533 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 221988001534 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 221988001535 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 221988001536 GTP-binding protein YchF; Reviewed; Region: PRK09601 221988001537 YchF GTPase; Region: YchF; cd01900 221988001538 G1 box; other site 221988001539 GTP/Mg2+ binding site [chemical binding]; other site 221988001540 Switch I region; other site 221988001541 G2 box; other site 221988001542 Switch II region; other site 221988001543 G3 box; other site 221988001544 G4 box; other site 221988001545 G5 box; other site 221988001546 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 221988001547 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 221988001548 putative active site [active] 221988001549 catalytic residue [active] 221988001550 EamA-like transporter family; Region: EamA; cl01037 221988001551 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 221988001552 Uncharacterized conserved protein [Function unknown]; Region: COG2850 221988001553 JmjC domain, hydroxylase; Region: JmjC; cl15814 221988001554 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 221988001555 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 221988001556 generic binding surface II; other site 221988001557 generic binding surface I; other site 221988001558 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 221988001559 trimer interface [polypeptide binding]; other site 221988001560 eyelet of channel; other site 221988001561 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 221988001562 Helix-turn-helix domains; Region: HTH; cl00088 221988001563 Bacterial transcriptional regulator; Region: IclR; pfam01614 221988001564 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 221988001565 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 221988001566 NADP binding site [chemical binding]; other site 221988001567 homodimer interface [polypeptide binding]; other site 221988001568 active site 221988001569 hypothetical protein; Provisional; Region: PRK09273 221988001570 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 221988001571 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 221988001572 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 221988001573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221988001574 substrate binding site [chemical binding]; other site 221988001575 ATP binding site [chemical binding]; other site 221988001576 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 221988001577 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 221988001578 active site 221988001579 intersubunit interface [polypeptide binding]; other site 221988001580 catalytic residue [active] 221988001581 Cupin domain; Region: Cupin_2; cl09118 221988001582 YceG-like family; Region: YceG; pfam02618 221988001583 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 221988001584 dimerization interface [polypeptide binding]; other site 221988001585 thymidylate kinase; Validated; Region: tmk; PRK00698 221988001586 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 221988001587 TMP-binding site; other site 221988001588 ATP-binding site [chemical binding]; other site 221988001589 DNA polymerase III subunit delta'; Validated; Region: PRK06871 221988001590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001591 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 221988001592 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 221988001593 active site 221988001594 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 221988001595 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 221988001596 Domain of unknown function DUF21; Region: DUF21; pfam01595 221988001597 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 221988001598 Transporter associated domain; Region: CorC_HlyC; cl08393 221988001599 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 221988001600 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 221988001601 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 221988001602 generic binding surface II; other site 221988001603 generic binding surface I; other site 221988001604 xanthine permease; Region: pbuX; TIGR03173 221988001605 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 221988001606 Protein of unknown function (DUF419); Region: DUF419; cl15265 221988001607 Predicted permeases [General function prediction only]; Region: RarD; COG2962 221988001608 EamA-like transporter family; Region: EamA; cl01037 221988001609 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 221988001610 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 221988001611 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221988001612 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 221988001613 dimer interface [polypeptide binding]; other site 221988001614 conserved gate region; other site 221988001615 putative PBP binding loops; other site 221988001616 ABC-ATPase subunit interface; other site 221988001617 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221988001618 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 221988001619 dimer interface [polypeptide binding]; other site 221988001620 conserved gate region; other site 221988001621 putative PBP binding loops; other site 221988001622 ABC-ATPase subunit interface; other site 221988001623 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 221988001624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001625 Walker A/P-loop; other site 221988001626 ATP binding site [chemical binding]; other site 221988001627 Q-loop/lid; other site 221988001628 ABC transporter signature motif; other site 221988001629 Walker B; other site 221988001630 D-loop; other site 221988001631 H-loop/switch region; other site 221988001632 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 221988001633 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 221988001634 dimer interface [polypeptide binding]; other site 221988001635 ssDNA binding site [nucleotide binding]; other site 221988001636 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221988001637 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 221988001638 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 221988001639 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 221988001640 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 221988001641 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 221988001642 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 221988001643 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 221988001644 molybdopterin cofactor binding site [chemical binding]; other site 221988001645 substrate binding site [chemical binding]; other site 221988001646 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 221988001647 molybdopterin cofactor binding site; other site 221988001648 rod shape-determining protein MreB; Provisional; Region: PRK13927 221988001649 hypothetical protein; Provisional; Region: PRK10039 221988001650 Cell division protein FtsA; Region: FtsA; cl11496 221988001651 rod shape-determining protein MreC; Region: mreC; TIGR00219 221988001652 rod shape-determining protein MreC; Region: MreC; pfam04085 221988001653 rod shape-determining protein MreD; Region: MreD; cl01087 221988001654 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 221988001655 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 221988001656 active site 221988001657 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 221988001658 substrate binding site [chemical binding]; other site 221988001659 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 221988001660 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 221988001661 substrate binding site [chemical binding]; other site 221988001662 ligand binding site [chemical binding]; other site 221988001663 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_3; cd07241 221988001664 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221988001665 putative metal binding site [ion binding]; other site 221988001666 tartrate dehydrogenase; Provisional; Region: PRK08194 221988001667 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 221988001668 2-isopropylmalate synthase; Validated; Region: PRK00915 221988001669 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 221988001670 active site 221988001671 catalytic residues [active] 221988001672 metal binding site [ion binding]; metal-binding site 221988001673 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 221988001674 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 221988001675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988001676 Walker A/P-loop; other site 221988001677 ATP binding site [chemical binding]; other site 221988001678 Q-loop/lid; other site 221988001679 ABC transporter signature motif; other site 221988001680 Walker B; other site 221988001681 D-loop; other site 221988001682 H-loop/switch region; other site 221988001683 CcmB protein; Region: CcmB; cl01016 221988001684 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221988001685 Heme exporter protein D (CcmD); Region: CcmD; cl11475 221988001686 CcmE; Region: CcmE; cl00994 221988001687 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221988001688 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 221988001689 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 221988001690 catalytic residues [active] 221988001691 central insert; other site 221988001692 Cytochrome C biogenesis protein; Region: CcmH; cl01179 221988001693 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 221988001694 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 221988001695 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 221988001696 binding surface 221988001697 TPR motif; other site 221988001698 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 221988001699 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221988001700 putative metal binding site [ion binding]; other site 221988001701 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 221988001702 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 221988001703 Protein of unknown function (DUF986); Region: DUF986; cl01983 221988001704 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 221988001705 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 221988001706 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 221988001707 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 221988001708 active pocket/dimerization site; other site 221988001709 active site 221988001710 phosphorylation site [posttranslational modification] 221988001711 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 221988001712 active site 221988001713 phosphorylation site [posttranslational modification] 221988001714 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 221988001715 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 221988001716 PhnA protein; Region: PhnA; pfam03831 221988001717 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 221988001718 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 221988001719 putative active site [active] 221988001720 putative dimer interface [polypeptide binding]; other site 221988001721 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 221988001722 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 221988001723 active site 221988001724 HIGH motif; other site 221988001725 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 221988001726 KMSKS motif; other site 221988001727 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 221988001728 tRNA binding surface [nucleotide binding]; other site 221988001729 anticodon binding site; other site 221988001730 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 221988001731 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 221988001732 substrate binding site [chemical binding]; other site 221988001733 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 221988001734 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 221988001735 substrate binding site [chemical binding]; other site 221988001736 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 221988001737 active site 221988001738 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 221988001739 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 221988001740 dimerization interface [polypeptide binding]; other site 221988001741 putative ATP binding site [chemical binding]; other site 221988001742 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 221988001743 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 221988001744 active site 221988001745 substrate binding site [chemical binding]; other site 221988001746 cosubstrate binding site; other site 221988001747 catalytic site [active] 221988001748 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988001749 active site 221988001750 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 221988001751 SurA N-terminal domain; Region: SurA_N_3; cl07813 221988001752 PPIC-type PPIASE domain; Region: Rotamase; cl08278 221988001753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988001754 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 221988001755 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 221988001756 active site 221988001757 metal binding site [ion binding]; metal-binding site 221988001758 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 221988001759 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 221988001760 FeS/SAM binding site; other site 221988001761 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 221988001762 ATP cone domain; Region: ATP-cone; pfam03477 221988001763 Class III ribonucleotide reductase; Region: RNR_III; cd01675 221988001764 effector binding site; other site 221988001765 active site 221988001766 Zn binding site [ion binding]; other site 221988001767 glycine loop; other site 221988001768 Integral membrane protein TerC family; Region: TerC; cl10468 221988001769 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 221988001770 putative DNA-binding cleft [nucleotide binding]; other site 221988001771 putative DNA clevage site; other site 221988001772 molecular lever; other site 221988001773 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 221988001774 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 221988001775 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 221988001776 DNA binding site [nucleotide binding] 221988001777 active site 221988001778 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988001779 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 221988001780 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 221988001781 ligand binding site [chemical binding]; other site 221988001782 calcium binding site [ion binding]; other site 221988001783 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 221988001784 TM-ABC transporter signature motif; other site 221988001785 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 221988001786 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 221988001787 Walker A/P-loop; other site 221988001788 ATP binding site [chemical binding]; other site 221988001789 Q-loop/lid; other site 221988001790 ABC transporter signature motif; other site 221988001791 Walker B; other site 221988001792 D-loop; other site 221988001793 H-loop/switch region; other site 221988001794 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 221988001795 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 221988001796 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 221988001797 ligand binding site [chemical binding]; other site 221988001798 calcium binding site [ion binding]; other site 221988001799 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 221988001800 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988001801 DNA binding site [nucleotide binding] 221988001802 domain linker motif; other site 221988001803 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 221988001804 ligand binding site [chemical binding]; other site 221988001805 dimerization interface (closed form) [polypeptide binding]; other site 221988001806 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 221988001807 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 221988001808 dimer interface [polypeptide binding]; other site 221988001809 active site 221988001810 galactokinase; Provisional; Region: PRK05101 221988001811 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 221988001812 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 221988001813 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 221988001814 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 221988001815 active site 221988001816 catalytic residues [active] 221988001817 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 221988001818 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 221988001819 Transporter associated domain; Region: CorC_HlyC; cl08393 221988001820 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 221988001821 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 221988001822 putative active site [active] 221988001823 catalytic triad [active] 221988001824 putative dimer interface [polypeptide binding]; other site 221988001825 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 221988001826 rRNA binding site [nucleotide binding]; other site 221988001827 predicted 30S ribosome binding site; other site 221988001828 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 221988001829 Chain length determinant protein; Region: Wzz; cl15801 221988001830 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 221988001831 MatE; Region: MatE; cl10513 221988001832 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 221988001833 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 221988001834 active site 221988001835 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 221988001836 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 221988001837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988001838 UDP-galactopyranose mutase; Region: GLF; pfam03275 221988001839 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 221988001840 Bacterial sugar transferase; Region: Bac_transf; cl00939 221988001841 GtrA-like protein; Region: GtrA; cl00971 221988001842 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 221988001843 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 221988001844 Ligand binding site; other site 221988001845 Putative Catalytic site; other site 221988001846 DXD motif; other site 221988001847 aminopeptidase B; Provisional; Region: PRK05015 221988001848 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 221988001849 interface (dimer of trimers) [polypeptide binding]; other site 221988001850 Substrate-binding/catalytic site; other site 221988001851 Zn-binding sites [ion binding]; other site 221988001852 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 221988001853 active site 221988001854 multimer interface [polypeptide binding]; other site 221988001855 S-adenosylmethionine synthetase; Validated; Region: PRK05250 221988001856 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 221988001857 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 221988001858 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 221988001859 Ferritin-like domain; Region: Ferritin; pfam00210 221988001860 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 221988001861 dimerization interface [polypeptide binding]; other site 221988001862 DPS ferroxidase diiron center [ion binding]; other site 221988001863 ion pore; other site 221988001864 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 221988001865 NlpC/P60 family; Region: NLPC_P60; cl11438 221988001866 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 221988001867 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 221988001868 ArsC family; Region: ArsC; pfam03960 221988001869 putative catalytic residues [active] 221988001870 Transposase IS200 like; Region: Y1_Tnp; cl00848 221988001871 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 221988001872 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 221988001873 metal binding site [ion binding]; metal-binding site 221988001874 dimer interface [polypeptide binding]; other site 221988001875 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 221988001876 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 221988001877 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 221988001878 thiamine phosphate binding site [chemical binding]; other site 221988001879 active site 221988001880 pyrophosphate binding site [ion binding]; other site 221988001881 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 221988001882 dimer interface [polypeptide binding]; other site 221988001883 substrate binding site [chemical binding]; other site 221988001884 ATP binding site [chemical binding]; other site 221988001885 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 221988001886 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 221988001887 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 221988001888 FAD binding pocket [chemical binding]; other site 221988001889 FAD binding motif [chemical binding]; other site 221988001890 phosphate binding motif [ion binding]; other site 221988001891 beta-alpha-beta structure motif; other site 221988001892 NAD binding pocket [chemical binding]; other site 221988001893 Protein of unknown function (DUF615); Region: DUF615; cl01147 221988001894 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 221988001895 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 221988001896 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988001897 active site 221988001898 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 221988001899 Strictosidine synthase; Region: Str_synth; pfam03088 221988001900 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 221988001901 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988001902 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 221988001903 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221988001904 active site 221988001905 catalytic tetrad [active] 221988001906 GntP family permease; Region: GntP_permease; pfam02447 221988001907 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988001908 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 221988001909 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 221988001910 active site 221988001911 tetramer interface [polypeptide binding]; other site 221988001912 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; cl09155 221988001913 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 221988001914 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 221988001915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988001916 Glycerate kinase family; Region: Gly_kinase; cl00841 221988001917 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 221988001918 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 221988001919 Helix-turn-helix domains; Region: HTH; cl00088 221988001920 galactarate dehydratase; Region: galactar-dH20; TIGR03248 221988001921 SAF domain; Region: SAF; cl00555 221988001922 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 221988001923 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988001924 DctM-like transporters; Region: DctM; pfam06808 221988001925 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 221988001926 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988001927 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988001928 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 221988001929 16S/18S rRNA binding site [nucleotide binding]; other site 221988001930 S13e-L30e interaction site [polypeptide binding]; other site 221988001931 25S rRNA binding site [nucleotide binding]; other site 221988001932 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 221988001933 Predicted permease [General function prediction only]; Region: COG2056 221988001934 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988001935 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988001936 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 221988001937 dimer interface [polypeptide binding]; other site 221988001938 catalytic site [active] 221988001939 putative active site [active] 221988001940 putative substrate binding site [chemical binding]; other site 221988001941 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 221988001942 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 221988001943 dimer interface [polypeptide binding]; other site 221988001944 active site 221988001945 metal binding site [ion binding]; metal-binding site 221988001946 glutathione binding site [chemical binding]; other site 221988001947 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 221988001948 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 221988001949 substrate binding pocket [chemical binding]; other site 221988001950 membrane-bound complex binding site; other site 221988001951 hinge residues; other site 221988001952 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 221988001953 S-adenosylmethionine binding site [chemical binding]; other site 221988001954 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 221988001955 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 221988001956 dimer interface [polypeptide binding]; other site 221988001957 anticodon binding site; other site 221988001958 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 the...; Region: AspRS_core; cd00777 221988001959 homodimer interface [polypeptide binding]; other site 221988001960 motif 1; other site 221988001961 active site 221988001962 motif 2; other site 221988001963 GAD domain; Region: GAD; pfam02938 221988001964 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 attaches...; Region: class_II_aaRS-like_core; cl00268 221988001965 active site 221988001966 motif 3; other site 221988001967 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 221988001968 nudix motif; other site 221988001969 Transcriptional regulator; Region: Transcrip_reg; cl00361 221988001970 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; cd00529 221988001971 active site 221988001972 putative DNA-binding cleft [nucleotide binding]; other site 221988001973 dimer interface [polypeptide binding]; other site 221988001974 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 221988001975 RuvA N terminal domain; Region: RuvA_N; pfam01330 221988001976 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 221988001977 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 221988001978 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 221988001979 Walker A motif; other site 221988001980 ATP binding site [chemical binding]; other site 221988001981 Walker B motif; other site 221988001982 arginine finger; other site 221988001983 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 221988001984 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 221988001985 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 221988001986 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 221988001987 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 221988001988 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 221988001989 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 221988001990 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 221988001991 active site 221988001992 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 221988001993 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 221988001994 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 221988001995 Gram-negative bacterial tonB protein; Region: TonB; cl10048 221988001996 translocation protein TolB; Provisional; Region: tolB; PRK01742 221988001997 TolB amino-terminal domain; Region: TolB_N; cl00639 221988001998 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 221988001999 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 221988002000 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 221988002001 similar to outer membrane protein OmpA and related peptidoglycan-associated (lipo)proteins 221988002002 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 221988002003 Protein of unknown function (DUF2572); Region: DUF2572; pfam10833 221988002004 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 221988002005 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 221988002006 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 221988002007 Preprotein translocase SecG subunit; Region: SecG; cl09123 221988002008 DNA topoisomerase III; Provisional; Region: PRK07726 221988002009 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 221988002010 active site 221988002011 putative interdomain interaction site [polypeptide binding]; other site 221988002012 putative metal-binding site [ion binding]; other site 221988002013 putative nucleotide binding site [chemical binding]; other site 221988002014 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 221988002015 domain I; other site 221988002016 DNA binding groove [nucleotide binding] 221988002017 phosphate binding site [ion binding]; other site 221988002018 domain II; other site 221988002019 domain III; other site 221988002020 nucleotide binding site [chemical binding]; other site 221988002021 catalytic site [active] 221988002022 domain IV; other site 221988002023 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 221988002024 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 221988002025 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 221988002026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002027 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 221988002028 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 221988002029 catalytic loop [active] 221988002030 iron binding site [ion binding]; other site 221988002031 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 221988002032 4Fe-4S binding domain; Region: Fer4; cl02805 221988002033 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 221988002034 [4Fe-4S] binding site [ion binding]; other site 221988002035 molybdopterin cofactor binding site; other site 221988002036 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 221988002037 molybdopterin cofactor binding site; other site 221988002038 GTP-binding protein Der; Reviewed; Region: PRK00093 221988002039 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 221988002040 G1 box; other site 221988002041 GTP/Mg2+ binding site [chemical binding]; other site 221988002042 Switch I region; other site 221988002043 G2 box; other site 221988002044 Switch II region; other site 221988002045 G3 box; other site 221988002046 G4 box; other site 221988002047 G5 box; other site 221988002048 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 221988002049 G1 box; other site 221988002050 GTP/Mg2+ binding site [chemical binding]; other site 221988002051 Switch I region; other site 221988002052 G2 box; other site 221988002053 G3 box; other site 221988002054 Switch II region; other site 221988002055 G4 box; other site 221988002056 G5 box; other site 221988002057 YCII-related domain; Region: YCII; cl00999 221988002058 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 221988002059 Intracellular septation protein A; Region: IspA; cl01098 221988002060 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988002061 recombination and repair protein; Provisional; Region: PRK10869 221988002062 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 221988002063 Walker A/P-loop; other site 221988002064 ATP binding site [chemical binding]; other site 221988002065 Q-loop/lid; other site 221988002066 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 221988002067 ABC transporter signature motif; other site 221988002068 Walker B; other site 221988002069 D-loop; other site 221988002070 H-loop/switch region; other site 221988002071 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 221988002072 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 221988002073 heat shock protein GrpE; Provisional; Region: PRK14140 221988002074 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 221988002075 dimer interface [polypeptide binding]; other site 221988002076 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 221988002077 LexA repressor; Validated; Region: PRK00215 221988002078 Helix-turn-helix domains; Region: HTH; cl00088 221988002079 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 221988002080 Catalytic site [active] 221988002081 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 221988002082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 221988002083 putative acyl-acceptor binding pocket; other site 221988002084 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 221988002085 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 221988002086 active site 221988002087 Int/Topo IB signature motif; other site 221988002088 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 221988002089 THUMP domain; Region: THUMP; cl12076 221988002090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002091 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 221988002092 S-adenosylmethionine binding site [chemical binding]; other site 221988002093 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 221988002094 YadA-like C-terminal region; Region: YadA; pfam03895 221988002095 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 221988002096 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 221988002097 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 221988002098 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 221988002099 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 221988002100 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 221988002101 iron-sulfur cluster-binding protein; Region: TIGR00273 221988002102 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 221988002103 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 221988002104 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 221988002105 Cysteine-rich domain; Region: CCG; pfam02754 221988002106 Cysteine-rich domain; Region: CCG; pfam02754 221988002107 L-lactate permease; Region: Lactate_perm; cl00701 221988002108 N-acetylglutamate synthase; Validated; Region: PRK05279 221988002109 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 221988002110 putative feedback inhibition sensing region; other site 221988002111 putative nucleotide binding site [chemical binding]; other site 221988002112 putative substrate binding site [chemical binding]; other site 221988002113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221988002114 Coenzyme A binding pocket [chemical binding]; other site 221988002115 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 221988002116 GSH binding site [chemical binding]; other site 221988002117 catalytic residues [active] 221988002118 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 221988002119 dimer interface [polypeptide binding]; other site 221988002120 FMN binding site [chemical binding]; other site 221988002121 NADPH bind site [chemical binding]; other site 221988002122 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 221988002123 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988002124 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 221988002125 fumarate hydratase; Reviewed; Region: fumC; PRK00485 221988002126 Class II fumarases; Region: Fumarase_classII; cd01362 221988002127 active site 221988002128 tetramer interface [polypeptide binding]; other site 221988002129 hypothetical protein; Provisional; Region: PRK05415 221988002130 Domain of unknown function (DUF697); Region: DUF697; cl12064 221988002131 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 221988002132 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 221988002133 Walker A motif; other site 221988002134 ATP binding site [chemical binding]; other site 221988002135 Walker B motif; other site 221988002136 arginine finger; other site 221988002137 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 221988002138 Helix-turn-helix domains; Region: HTH; cl00088 221988002139 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 221988002140 putative dimerization interface [polypeptide binding]; other site 221988002141 AzlC protein; Region: AzlC; cl00570 221988002142 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 221988002143 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 221988002144 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 221988002145 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 221988002146 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 221988002147 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 221988002148 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 221988002149 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 221988002150 active site 221988002151 substrate binding site [chemical binding]; other site 221988002152 metal binding site [ion binding]; metal-binding site 221988002153 GMP synthase; Reviewed; Region: guaA; PRK00074 221988002154 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 221988002155 AMP/PPi binding site [chemical binding]; other site 221988002156 candidate oxyanion hole; other site 221988002157 catalytic triad [active] 221988002158 potential glutamine specificity residues [chemical binding]; other site 221988002159 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 221988002160 ATP Binding subdomain [chemical binding]; other site 221988002161 Ligand Binding sites [chemical binding]; other site 221988002162 Dimerization subdomain; other site 221988002163 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 221988002164 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; cl09108 221988002165 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 key...; Region: CBS_pair_IMPDH; cd04601 221988002166 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 the guanine...; Region: IMPDH; cd00381 221988002167 active site 221988002168 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 221988002169 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 221988002170 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 221988002171 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 221988002172 S-adenosylmethionine binding site [chemical binding]; other site 221988002173 Sodium:solute symporter family; Region: SSF; cl00456 221988002174 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221988002175 ribonuclease G; Provisional; Region: PRK11712 221988002176 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 221988002177 homodimer interface [polypeptide binding]; other site 221988002178 oligonucleotide binding site [chemical binding]; other site 221988002179 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 221988002180 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 221988002181 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 221988002182 inhibitor-cofactor binding pocket; inhibition site 221988002183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988002184 catalytic residue [active] 221988002185 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 221988002186 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 221988002187 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 221988002188 active site turn [active] 221988002189 phosphorylation site [posttranslational modification] 221988002190 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 221988002191 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 221988002192 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221988002193 putative substrate translocation pore; other site 221988002194 putative protease; Provisional; Region: PRK15452 221988002195 Peptidase family U32; Region: Peptidase_U32; cl03113 221988002196 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 221988002197 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 221988002198 FAD binding site [chemical binding]; other site 221988002199 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 221988002200 ABC-ATPase subunit interface; other site 221988002201 dimer interface [polypeptide binding]; other site 221988002202 putative PBP binding regions; other site 221988002203 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 221988002204 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 221988002205 putative peptidase; Provisional; Region: PRK11649 221988002206 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 221988002207 ABC-ATPase subunit interface; other site 221988002208 dimer interface [polypeptide binding]; other site 221988002209 putative PBP binding regions; other site 221988002210 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 221988002211 ABC-ATPase subunit interface; other site 221988002212 dimer interface [polypeptide binding]; other site 221988002213 putative PBP binding regions; other site 221988002214 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 221988002215 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221988002216 Walker A/P-loop; other site 221988002217 ATP binding site [chemical binding]; other site 221988002218 Q-loop/lid; other site 221988002219 ABC transporter signature motif; other site 221988002220 Walker B; other site 221988002221 D-loop; other site 221988002222 H-loop/switch region; other site 221988002223 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 221988002224 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 221988002225 putative ligand binding residues [chemical binding]; other site 221988002226 adenylate kinase; Reviewed; Region: adk; PRK00279 221988002227 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 221988002228 AMP-binding site [chemical binding]; other site 221988002229 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 221988002230 muropeptide transporter; Validated; Region: ampG; PRK11010 221988002231 AmpG-related permease; Region: 2A0125; TIGR00901 221988002232 UDP-glucose 4-epimerase; Region: PLN02240 221988002233 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 221988002234 NAD binding site [chemical binding]; other site 221988002235 homodimer interface [polypeptide binding]; other site 221988002236 active site 221988002237 substrate binding site [chemical binding]; other site 221988002238 Protein of unknown function (DUF805); Region: DUF805; cl01224 221988002239 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 221988002240 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 221988002241 Ligand Binding Site [chemical binding]; other site 221988002242 TilS substrate binding domain; Region: TilS; pfam09179 221988002243 B3/4 domain; Region: B3_4; cl11458 221988002244 pyridoxamine kinase; Validated; Region: PRK05756 221988002245 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 221988002246 dimer interface [polypeptide binding]; other site 221988002247 pyridoxal binding site [chemical binding]; other site 221988002248 ATP binding site [chemical binding]; other site 221988002249 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 221988002250 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 221988002251 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 221988002252 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 221988002253 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 221988002254 galactoside permease; Reviewed; Region: lacY; PRK09528 221988002255 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 221988002256 putative substrate translocation pore; other site 221988002257 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221988002258 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988002259 DNA binding site [nucleotide binding] 221988002260 domain linker motif; other site 221988002261 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 221988002262 putative dimerization interface [polypeptide binding]; other site 221988002263 putative ligand binding site [chemical binding]; other site 221988002264 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 221988002265 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 221988002266 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221988002267 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 221988002268 dimer interface [polypeptide binding]; other site 221988002269 conserved gate region; other site 221988002270 ABC-ATPase subunit interface; other site 221988002271 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 221988002272 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 221988002273 dimer interface [polypeptide binding]; other site 221988002274 conserved gate region; other site 221988002275 putative PBP binding loops; other site 221988002276 ABC-ATPase subunit interface; other site 221988002277 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 221988002278 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 221988002279 Walker A/P-loop; other site 221988002280 ATP binding site [chemical binding]; other site 221988002281 Q-loop/lid; other site 221988002282 ABC transporter signature motif; other site 221988002283 Walker B; other site 221988002284 D-loop; other site 221988002285 H-loop/switch region; other site 221988002286 TOBE domain; Region: TOBE_2; cl01440 221988002287 peptidase T; Region: peptidase-T; TIGR01882 221988002288 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 221988002289 metal binding site [ion binding]; metal-binding site 221988002290 dimer interface [polypeptide binding]; other site 221988002291 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 221988002292 mce related protein; Region: MCE; pfam02470 221988002293 mce related protein; Region: MCE; pfam02470 221988002294 mce related protein; Region: MCE; pfam02470 221988002295 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 221988002296 mce related protein; Region: MCE; pfam02470 221988002297 mce related protein; Region: MCE; pfam02470 221988002298 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 221988002299 Paraquat-inducible protein A; Region: PqiA; pfam04403 221988002300 Paraquat-inducible protein A; Region: PqiA; pfam04403 221988002301 ProP expression regulator; Provisional; Region: PRK04950 221988002302 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 221988002303 carboxy-terminal protease; Provisional; Region: PRK11186 221988002304 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 221988002305 protein binding site [polypeptide binding]; other site 221988002306 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 221988002307 Catalytic dyad [active] 221988002308 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 221988002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 221988002310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 221988002311 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 221988002312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 221988002313 Peptidase M15; Region: Peptidase_M15_3; cl01194 221988002314 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988002315 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 221988002316 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 221988002317 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 221988002318 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 221988002319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988002320 catalytic residue [active] 221988002321 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 221988002322 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 221988002323 inhibitor-cofactor binding pocket; inhibition site 221988002324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988002325 catalytic residue [active] 221988002326 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 221988002327 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 221988002328 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 221988002329 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 221988002330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002331 Walker A/P-loop; other site 221988002332 ATP binding site [chemical binding]; other site 221988002333 Q-loop/lid; other site 221988002334 ABC transporter signature motif; other site 221988002335 Walker B; other site 221988002336 D-loop; other site 221988002337 H-loop/switch region; other site 221988002338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002339 Walker A/P-loop; other site 221988002340 ATP binding site [chemical binding]; other site 221988002341 Q-loop/lid; other site 221988002342 ABC transporter signature motif; other site 221988002343 Walker B; other site 221988002344 D-loop; other site 221988002345 H-loop/switch region; other site 221988002346 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 221988002347 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 221988002348 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 221988002349 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988002350 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 221988002351 hypothetical protein; Provisional; Region: PRK11770 221988002352 Domain of unknown function (DUF307); Region: DUF307; pfam03733 221988002353 Domain of unknown function (DUF307); Region: DUF307; pfam03733 221988002354 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 221988002355 active site 221988002356 dimer interfaces [polypeptide binding]; other site 221988002357 catalytic residues [active] 221988002358 ABC transporter ATPase component; Reviewed; Region: PRK11147 221988002359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002360 Walker A/P-loop; other site 221988002361 ATP binding site [chemical binding]; other site 221988002362 Q-loop/lid; other site 221988002363 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988002364 ABC transporter signature motif; other site 221988002365 Walker B; other site 221988002366 ABC transporter; Region: ABC_tran_2; pfam12848 221988002367 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988002368 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 221988002369 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 221988002370 active site 221988002371 motif I; other site 221988002372 motif II; other site 221988002373 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988002374 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 221988002375 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 221988002376 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 221988002377 Acylphosphatase; Region: Acylphosphatase; cl00551 221988002378 DsrC like protein; Region: DsrC; cl01101 221988002379 YccA-like proteins; Region: YccA_like; cd10433 221988002380 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 221988002381 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988002382 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 221988002383 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988002384 Walker A/P-loop; other site 221988002385 ATP binding site [chemical binding]; other site 221988002386 Q-loop/lid; other site 221988002387 ABC transporter signature motif; other site 221988002388 Walker B; other site 221988002389 D-loop; other site 221988002390 H-loop/switch region; other site 221988002391 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 221988002392 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988002393 Walker A/P-loop; other site 221988002394 ATP binding site [chemical binding]; other site 221988002395 Q-loop/lid; other site 221988002396 ABC transporter signature motif; other site 221988002397 Walker B; other site 221988002398 D-loop; other site 221988002399 H-loop/switch region; other site 221988002400 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221988002401 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 221988002402 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 221988002403 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 221988002404 dimer interface [polypeptide binding]; other site 221988002405 conserved gate region; other site 221988002406 putative PBP binding loops; other site 221988002407 ABC-ATPase subunit interface; other site 221988002408 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 221988002409 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 221988002410 dimer interface [polypeptide binding]; other site 221988002411 conserved gate region; other site 221988002412 putative PBP binding loops; other site 221988002413 ABC-ATPase subunit interface; other site 221988002414 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 221988002415 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 221988002416 peptide binding site [polypeptide binding]; other site 221988002417 YcjX-like family, DUF463; Region: DUF463; cl01193 221988002418 DNA gyrase subunit A; Validated; Region: PRK05560 221988002419 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 in DNA...; Region: TOP4c; cd00187 221988002420 CAP-like domain; other site 221988002421 active site 221988002422 primary dimer interface [polypeptide binding]; other site 221988002423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002424 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002426 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002428 ferric uptake regulator; Provisional; Region: fur; PRK09462 221988002429 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 221988002430 metal binding site 2 [ion binding]; metal-binding site 221988002431 putative DNA binding helix; other site 221988002432 metal binding site 1 [ion binding]; metal-binding site 221988002433 dimer interface [polypeptide binding]; other site 221988002434 structural Zn2+ binding site [ion binding]; other site 221988002435 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988002436 LexA regulated protein; Provisional; Region: PRK11675 221988002437 acyl-CoA esterase; Provisional; Region: PRK10673 221988002438 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; cl12031 221988002439 SeqA protein; Region: SeqA; cl11470 221988002440 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 221988002441 AMP-binding enzyme; Region: AMP-binding; cl15778 221988002442 hypothetical protein; Provisional; Region: PRK11281 221988002443 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 221988002444 Mechanosensitive ion channel; Region: MS_channel; pfam00924 221988002445 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 221988002446 Tetramer interface [polypeptide binding]; other site 221988002447 active site 221988002448 FMN-binding site [chemical binding]; other site 221988002449 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 221988002450 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 221988002451 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 221988002452 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 221988002453 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 221988002454 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 221988002455 putative acyl-acceptor binding pocket; other site 221988002456 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 221988002457 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988002458 active site 221988002459 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 221988002460 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 221988002461 Walker A motif; other site 221988002462 ATP binding site [chemical binding]; other site 221988002463 Walker B motif; other site 221988002464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002465 arginine finger; other site 221988002466 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 221988002467 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 221988002468 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 221988002469 putative catalytic site [active] 221988002470 putative metal binding site [ion binding]; other site 221988002471 putative phosphate binding site [ion binding]; other site 221988002472 YwiC-like protein; Region: YwiC; pfam14256 221988002473 Sel1 repeat; Region: Sel1; cl02723 221988002474 Sel1 repeat; Region: Sel1; cl02723 221988002475 Sel1 repeat; Region: Sel1; cl02723 221988002476 Sel1 repeat; Region: Sel1; cl02723 221988002477 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 221988002478 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 in DNA...; Region: TOP4c; cd00187 221988002479 CAP-like domain; other site 221988002480 active site 221988002481 primary dimer interface [polypeptide binding]; other site 221988002482 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 221988002483 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 221988002484 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 221988002485 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 221988002486 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 221988002487 ATP binding site [chemical binding]; other site 221988002488 Mg2+ binding site [ion binding]; other site 221988002489 G-X-G motif; other site 221988002490 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 221988002491 anchoring element; other site 221988002492 dimer interface [polypeptide binding]; other site 221988002493 ATP binding site [chemical binding]; other site 221988002494 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 221988002495 active site 221988002496 putative metal-binding site [ion binding]; other site 221988002497 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 221988002498 bile acid transporter; Region: bass; TIGR00841 221988002499 Membrane transport protein; Region: Mem_trans; cl09117 221988002500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221988002501 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; cl12031 221988002502 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 221988002503 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 221988002504 dimer interface [polypeptide binding]; other site 221988002505 active site 221988002506 metal binding site [ion binding]; metal-binding site 221988002507 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988002508 Helix-turn-helix domains; Region: HTH; cl00088 221988002509 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 221988002510 dimerization interface [polypeptide binding]; other site 221988002511 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 221988002512 EamA-like transporter family; Region: EamA; cl01037 221988002513 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 221988002514 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 221988002515 DNA binding residues [nucleotide binding] 221988002516 dimer interface [polypeptide binding]; other site 221988002517 copper binding site [ion binding]; other site 221988002518 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; cl00207 221988002519 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 221988002520 metal-binding site [ion binding] 221988002521 copper exporting ATPase; Provisional; Region: copA; PRK10671 221988002522 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 221988002523 metal-binding site [ion binding] 221988002524 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 221988002525 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 221988002526 motif II; other site 221988002527 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 221988002528 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 221988002529 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 221988002530 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 221988002531 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 221988002532 molybdopterin cofactor binding site; other site 221988002533 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 221988002534 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 221988002535 molybdopterin cofactor binding site; other site 221988002536 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 221988002537 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 221988002538 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 221988002539 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; cl15754 221988002540 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 221988002541 Helix-turn-helix domains; Region: HTH; cl00088 221988002542 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 221988002543 dimerization interface [polypeptide binding]; other site 221988002544 substrate binding pocket [chemical binding]; other site 221988002545 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 221988002546 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 221988002547 homodimer interface [polypeptide binding]; other site 221988002548 substrate-cofactor binding pocket; other site 221988002549 catalytic residue [active] 221988002550 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 221988002551 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339; cl15420 221988002552 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 221988002553 chaperone protein DnaJ; Provisional; Region: PRK10767 221988002554 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 221988002555 HSP70 interaction site [polypeptide binding]; other site 221988002556 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 221988002557 substrate binding site [polypeptide binding]; other site 221988002558 dimer interface [polypeptide binding]; other site 221988002559 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221988002560 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 221988002561 substrate binding pocket [chemical binding]; other site 221988002562 membrane-bound complex binding site; other site 221988002563 hinge residues; other site 221988002564 Transglycosylase SLT domain; Region: SLT_2; pfam13406 221988002565 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 221988002566 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 221988002567 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 221988002568 active site 221988002569 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 221988002570 active site 221988002571 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 221988002572 MatE; Region: MatE; cl10513 221988002573 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 221988002574 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 221988002575 putative active site [active] 221988002576 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 221988002577 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 221988002578 substrate binding [chemical binding]; other site 221988002579 active site 221988002580 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 221988002581 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 221988002582 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 221988002583 inhibitor-cofactor binding pocket; inhibition site 221988002584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988002585 catalytic residue [active] 221988002586 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 221988002587 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 221988002588 Mg++ binding site [ion binding]; other site 221988002589 putative catalytic motif [active] 221988002590 substrate binding site [chemical binding]; other site 221988002591 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 221988002592 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 221988002593 endonuclease III; Provisional; Region: PRK10702 221988002594 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 221988002595 minor groove reading motif; other site 221988002596 helix-hairpin-helix signature motif; other site 221988002597 substrate binding pocket [chemical binding]; other site 221988002598 active site 221988002599 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 221988002600 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 221988002601 FMN-binding domain; Region: FMN_bind; cl01081 221988002602 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 221988002603 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 221988002604 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 221988002605 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 221988002606 SLBB domain; Region: SLBB; pfam10531 221988002607 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 221988002608 electron transport complex protein RnfB; Provisional; Region: PRK05113 221988002609 Putative Fe-S cluster; Region: FeS; pfam04060 221988002610 4Fe-4S binding domain; Region: Fer4; cl02805 221988002611 4Fe-4S binding domain; Region: Fer4; cl02805 221988002612 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 221988002613 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 221988002614 putative active site [active] 221988002615 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; cl12031 221988002616 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 221988002617 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 221988002618 catalytic center binding site [active] 221988002619 ATP binding site [chemical binding]; other site 221988002620 poly(A) polymerase; Region: pcnB; TIGR01942 221988002621 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 221988002622 active site 221988002623 NTP binding site [chemical binding]; other site 221988002624 metal binding triad [ion binding]; metal-binding site 221988002625 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 221988002626 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 221988002627 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 221988002628 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 221988002629 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 221988002630 Competence protein; Region: Competence; cl00471 221988002631 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988002632 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 221988002633 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988002634 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 221988002635 Walker A/P-loop; other site 221988002636 ATP binding site [chemical binding]; other site 221988002637 Q-loop/lid; other site 221988002638 ABC transporter signature motif; other site 221988002639 Walker B; other site 221988002640 D-loop; other site 221988002641 H-loop/switch region; other site 221988002642 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 221988002643 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 221988002644 Trm112p-like protein; Region: Trm112p; cl01066 221988002645 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 221988002646 Ligand binding site; other site 221988002647 oligomer interface; other site 221988002648 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 221988002649 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 221988002650 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 221988002651 GIY-YIG motif/motif A; other site 221988002652 active site 221988002653 catalytic site [active] 221988002654 putative DNA binding site [nucleotide binding]; other site 221988002655 metal binding site [ion binding]; metal-binding site 221988002656 UvrB/uvrC motif; Region: UVR; pfam02151 221988002657 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 221988002658 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 221988002659 DNA binding site [nucleotide binding] 221988002660 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK07636 221988002661 active site 221988002662 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 221988002663 DNA binding site [nucleotide binding] 221988002664 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 221988002665 substrate binding site [chemical binding]; other site 221988002666 THF binding site; other site 221988002667 zinc-binding site [ion binding]; other site 221988002668 Protein of unknown function (DUF808); Region: DUF808; cl01002 221988002669 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 221988002670 YcaO-like family; Region: YcaO; pfam02624 221988002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002672 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988002673 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 221988002674 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 221988002675 acyl-CoA thioesterase II; Provisional; Region: PRK10526 221988002676 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 221988002677 active site 221988002678 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 221988002679 catalytic triad [active] 221988002680 dimer interface [polypeptide binding]; other site 221988002681 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 221988002682 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988002683 The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd...; Region: ABCC_cytochrome_bd; cd03247 221988002684 Walker A/P-loop; other site 221988002685 ATP binding site [chemical binding]; other site 221988002686 Q-loop/lid; other site 221988002687 ABC transporter signature motif; other site 221988002688 Walker B; other site 221988002689 D-loop; other site 221988002690 H-loop/switch region; other site 221988002691 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 221988002692 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988002693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002694 Walker A/P-loop; other site 221988002695 ATP binding site [chemical binding]; other site 221988002696 Q-loop/lid; other site 221988002697 ABC transporter signature motif; other site 221988002698 Walker B; other site 221988002699 D-loop; other site 221988002700 H-loop/switch region; other site 221988002701 thioredoxin reductase; Provisional; Region: PRK10262 221988002702 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221988002703 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 221988002704 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 221988002705 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988002706 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988002707 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 221988002708 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 221988002709 NADP binding site [chemical binding]; other site 221988002710 homodimer interface [polypeptide binding]; other site 221988002711 active site 221988002712 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 221988002713 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 221988002714 putative NAD(P) binding site [chemical binding]; other site 221988002715 catalytic Zn binding site [ion binding]; other site 221988002716 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 221988002717 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 221988002718 ATP-binding site [chemical binding]; other site 221988002719 Gluconate-6-phosphate binding site [chemical binding]; other site 221988002720 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 221988002721 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 221988002722 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988002723 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 221988002724 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 221988002725 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 221988002726 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 221988002727 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 221988002728 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 221988002729 S-adenosylmethionine binding site [chemical binding]; other site 221988002730 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 221988002731 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 221988002732 Walker A motif; other site 221988002733 ATP binding site [chemical binding]; other site 221988002734 Walker B motif; other site 221988002735 arginine finger; other site 221988002736 Peptidase family M41; Region: Peptidase_M41; pfam01434 221988002737 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 221988002738 dihydropteroate synthase; Region: DHPS; TIGR01496 221988002739 substrate binding pocket [chemical binding]; other site 221988002740 dimer interface [polypeptide binding]; other site 221988002741 inhibitor binding site; inhibition site 221988002742 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 221988002743 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 221988002744 active site 221988002745 substrate binding site [chemical binding]; other site 221988002746 metal binding site [ion binding]; metal-binding site 221988002747 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 221988002748 dimer interface [polypeptide binding]; other site 221988002749 putative radical transfer pathway; other site 221988002750 diiron center [ion binding]; other site 221988002751 tyrosyl radical; other site 221988002752 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 221988002753 catalytic loop [active] 221988002754 iron binding site [ion binding]; other site 221988002755 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221988002756 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 221988002757 transmembrane helices; other site 221988002758 dihydrodipicolinate reductase; Provisional; Region: PRK00048 221988002759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002760 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 221988002761 LysE type translocator; Region: LysE; cl00565 221988002762 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 221988002763 tetramer interfaces [polypeptide binding]; other site 221988002764 binuclear metal-binding site [ion binding]; other site 221988002765 thiamine monophosphate kinase; Provisional; Region: PRK05731 221988002766 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 221988002767 ATP binding site [chemical binding]; other site 221988002768 dimerization interface [polypeptide binding]; other site 221988002769 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 221988002770 putative RNA binding site [nucleotide binding]; other site 221988002771 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 221988002772 homopentamer interface [polypeptide binding]; other site 221988002773 active site 221988002774 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 221988002775 aromatic amino acid transport protein; Region: araaP; TIGR00837 221988002776 putative transposase OrfB; Reviewed; Region: PHA02517 221988002777 HTH-like domain; Region: HTH_21; pfam13276 221988002778 Integrase core domain; Region: rve; cl01316 221988002779 Integrase core domain; Region: rve_3; cl15866 221988002780 Helix-turn-helix domains; Region: HTH; cl00088 221988002781 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 221988002782 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 221988002783 Uncharacterized conserved protein [Function unknown]; Region: COG1432 221988002784 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 221988002785 putative metal binding site [ion binding]; other site 221988002786 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 221988002787 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 221988002788 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 221988002789 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 221988002790 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 221988002791 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 221988002792 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 221988002793 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 221988002794 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 221988002795 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 221988002796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002797 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 221988002798 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 221988002799 ATP cone domain; Region: ATP-cone; pfam03477 221988002800 Class I ribonucleotide reductase; Region: RNR_I; cd01679 221988002801 active site 221988002802 dimer interface [polypeptide binding]; other site 221988002803 catalytic residues [active] 221988002804 effector binding site; other site 221988002805 R2 peptide binding site; other site 221988002806 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 221988002807 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 221988002808 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 221988002809 protein binding site [polypeptide binding]; other site 221988002810 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 221988002811 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 221988002812 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 221988002813 active site 221988002814 motif I; other site 221988002815 motif II; other site 221988002816 KpsF/GutQ family protein; Region: kpsF; TIGR00393 221988002817 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 221988002818 putative active site [active] 221988002819 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 221988002820 phosphate acetyltransferase; Reviewed; Region: PRK05632 221988002821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002822 DRTGG domain; Region: DRTGG; cl12147 221988002823 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 221988002824 Acetokinase family; Region: Acetate_kinase; cl01029 221988002825 propionate/acetate kinase; Provisional; Region: PRK12379 221988002826 Protein of unknown function, DUF412; Region: DUF412; cl01183 221988002827 Colicin V production protein; Region: Colicin_V; cl00567 221988002828 amidophosphoribosyltransferase; Provisional; Region: PRK09246 221988002829 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 221988002830 active site 221988002831 tetramer interface [polypeptide binding]; other site 221988002832 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988002833 active site 221988002834 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 221988002835 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 221988002836 ATP binding site [chemical binding]; other site 221988002837 substrate interface [chemical binding]; other site 221988002838 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 221988002839 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 221988002840 dimer interface [polypeptide binding]; other site 221988002841 putative functional site; other site 221988002842 putative MPT binding site; other site 221988002843 AAA domain; Region: AAA_26; pfam13500 221988002844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002845 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 221988002846 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 221988002847 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 221988002848 substrate binding pocket [chemical binding]; other site 221988002849 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 221988002850 B12 binding site [chemical binding]; other site 221988002851 cobalt ligand [ion binding]; other site 221988002852 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 221988002853 Transposase IS200 like; Region: Y1_Tnp; cl00848 221988002854 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 221988002855 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221988002856 Walker A/P-loop; other site 221988002857 ATP binding site [chemical binding]; other site 221988002858 Q-loop/lid; other site 221988002859 ABC transporter signature motif; other site 221988002860 Walker B; other site 221988002861 D-loop; other site 221988002862 H-loop/switch region; other site 221988002863 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 221988002864 ABC-ATPase subunit interface; other site 221988002865 dimer interface [polypeptide binding]; other site 221988002866 putative PBP binding regions; other site 221988002867 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 221988002868 intersubunit interface [polypeptide binding]; other site 221988002869 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 221988002870 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 221988002871 N-terminal plug; other site 221988002872 ligand-binding site [chemical binding]; other site 221988002873 Protein of unknown function, DUF440; Region: DUF440; cl11472 221988002874 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 221988002875 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 221988002876 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 221988002877 DsrE/DsrF-like family; Region: DrsE; cl00672 221988002878 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 221988002879 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 221988002880 phosphate binding site [ion binding]; other site 221988002881 putative substrate binding pocket [chemical binding]; other site 221988002882 dimer interface [polypeptide binding]; other site 221988002883 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 221988002884 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 221988002885 FeS/SAM binding site; other site 221988002886 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 221988002887 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 221988002888 trimer interface [polypeptide binding]; other site 221988002889 dimer interface [polypeptide binding]; other site 221988002890 putative active site [active] 221988002891 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 221988002892 MoaE interaction surface [polypeptide binding]; other site 221988002893 MoeB interaction surface [polypeptide binding]; other site 221988002894 thiocarboxylated glycine; other site 221988002895 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 221988002896 MoaE homodimer interface [polypeptide binding]; other site 221988002897 MoaD interaction [polypeptide binding]; other site 221988002898 active site residues [active] 221988002899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988002901 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 221988002902 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 221988002903 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 221988002904 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 221988002905 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 221988002906 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 221988002907 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 221988002908 [4Fe-4S] binding site [ion binding]; other site 221988002909 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 221988002910 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 221988002911 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 221988002912 molybdopterin cofactor binding site; other site 221988002913 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 221988002914 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 221988002915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988002916 homodimer interface [polypeptide binding]; other site 221988002917 catalytic residue [active] 221988002918 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 221988002919 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988002920 AIR carboxylase; Region: AIRC; cl00310 221988002921 aminopeptidase N; Provisional; Region: pepN; PRK14015 221988002922 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 221988002923 active site 221988002924 Zn binding site [ion binding]; other site 221988002925 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 221988002926 quinone interaction residues [chemical binding]; other site 221988002927 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 221988002928 active site 221988002929 catalytic residues [active] 221988002930 FMN binding site [chemical binding]; other site 221988002931 substrate binding site [chemical binding]; other site 221988002932 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 221988002933 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 221988002934 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 221988002935 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 221988002936 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 221988002937 RNA binding surface [nucleotide binding]; other site 221988002938 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 221988002939 probable active site [active] 221988002940 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 221988002941 Helix-turn-helix domains; Region: HTH; cl00088 221988002942 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 221988002943 substrate binding site [chemical binding]; other site 221988002944 dimerization interface [polypeptide binding]; other site 221988002945 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 221988002946 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 221988002947 putative dimer interface [polypeptide binding]; other site 221988002948 putative anticodon binding site; other site 221988002949 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 221988002950 homodimer interface [polypeptide binding]; other site 221988002951 motif 1; other site 221988002952 motif 2; other site 221988002953 active site 221988002954 motif 3; other site 221988002955 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 221988002956 homodecamer interface [polypeptide binding]; other site 221988002957 GTP cyclohydrolase I; Provisional; Region: PLN03044 221988002958 active site 221988002959 putative catalytic site residues [active] 221988002960 zinc binding site [ion binding]; other site 221988002961 GTP-CH-I/GFRP interaction surface; other site 221988002962 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988002963 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 221988002964 YcgL domain; Region: YcgL; cl01189 221988002965 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 221988002966 putative catalytic site [active] 221988002967 putative phosphate binding site [ion binding]; other site 221988002968 active site 221988002969 metal binding site A [ion binding]; metal-binding site 221988002970 DNA binding site [nucleotide binding] 221988002971 putative AP binding site [nucleotide binding]; other site 221988002972 putative metal binding site B [ion binding]; other site 221988002973 Family of unknown function (DUF695); Region: DUF695; pfam05117 221988002974 TIGR01619 family protein; Region: hyp_HI0040 221988002975 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 221988002976 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988002977 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 221988002978 motif II; other site 221988002979 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 221988002980 Phosphotransferase enzyme family; Region: APH; pfam01636 221988002981 active site 221988002982 ATP binding site [chemical binding]; other site 221988002983 glutaredoxin 2; Provisional; Region: PRK10387 221988002984 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 221988002985 C-terminal domain interface [polypeptide binding]; other site 221988002986 GSH binding site (G-site) [chemical binding]; other site 221988002987 catalytic residues [active] 221988002988 putative dimer interface [polypeptide binding]; other site 221988002989 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 221988002990 N-terminal domain interface [polypeptide binding]; other site 221988002991 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 221988002992 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 221988002993 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 221988002994 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 221988002995 active site 221988002996 dimer interface [polypeptide binding]; other site 221988002997 motif 1; other site 221988002998 motif 2; other site 221988002999 motif 3; other site 221988003000 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 221988003001 anticodon binding site; other site 221988003002 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 221988003003 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 221988003004 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 221988003005 ribosomal protein L20; Region: rpl20; CHL00068 221988003006 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 221988003007 23S rRNA binding site [nucleotide binding]; other site 221988003008 L21 binding site [polypeptide binding]; other site 221988003009 L13 binding site [polypeptide binding]; other site 221988003010 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 221988003011 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 221988003012 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 221988003013 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 221988003014 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 221988003015 TPP-binding site; other site 221988003016 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 221988003017 PYR/PP interface [polypeptide binding]; other site 221988003018 dimer interface [polypeptide binding]; other site 221988003019 TPP binding site [chemical binding]; other site 221988003020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 221988003021 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 221988003022 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 221988003023 substrate binding pocket [chemical binding]; other site 221988003024 chain length determination region; other site 221988003025 substrate-Mg2+ binding site; other site 221988003026 catalytic residues [active] 221988003027 aspartate-rich region 1; other site 221988003028 active site lid residues [active] 221988003029 aspartate-rich region 2; other site 221988003030 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 221988003031 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 221988003032 THUMP domain; Region: THUMP; cl12076 221988003033 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 221988003034 Ligand Binding Site [chemical binding]; other site 221988003035 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 221988003036 active site residue [active] 221988003037 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 221988003038 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988003039 DNA binding site [nucleotide binding] 221988003040 domain linker motif; other site 221988003041 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 221988003042 dimerization interface [polypeptide binding]; other site 221988003043 ligand binding site [chemical binding]; other site 221988003044 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 221988003045 active site clefts [active] 221988003046 zinc binding site [ion binding]; other site 221988003047 dimer interface [polypeptide binding]; other site 221988003048 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 221988003049 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 221988003050 Walker A/P-loop; other site 221988003051 ATP binding site [chemical binding]; other site 221988003052 Q-loop/lid; other site 221988003053 ABC transporter signature motif; other site 221988003054 Walker B; other site 221988003055 D-loop; other site 221988003056 H-loop/switch region; other site 221988003057 ABC-2 type transporter; Region: ABC2_membrane; cl11417 221988003058 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 221988003059 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 221988003060 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 221988003061 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 221988003062 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 221988003063 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 221988003064 tRNA pseudouridine synthase C; Region: DUF446; cl01187 221988003065 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 221988003066 probable active site [active] 221988003067 ornithine carbamoyltransferase; Provisional; Region: PRK01713 221988003068 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 221988003069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003070 Uncharacterized protein family (UPF0181); Region: UPF0181; cl11477 221988003071 universal stress protein UspE; Provisional; Region: PRK11175 221988003072 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 221988003073 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 221988003074 Ligand Binding Site [chemical binding]; other site 221988003075 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 221988003076 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 221988003077 ligand binding site [chemical binding]; other site 221988003078 flexible hinge region; other site 221988003079 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 221988003080 putative switch regulator; other site 221988003081 non-specific DNA interactions [nucleotide binding]; other site 221988003082 DNA binding site [nucleotide binding] 221988003083 sequence specific DNA binding site [nucleotide binding]; other site 221988003084 putative cAMP binding site [chemical binding]; other site 221988003085 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 221988003086 Ferritin-like domain; Region: Ferritin; pfam00210 221988003087 ferroxidase diiron center [ion binding]; other site 221988003088 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 221988003089 Ferritin-like domain; Region: Ferritin; pfam00210 221988003090 ferroxidase diiron center [ion binding]; other site 221988003091 exonuclease I; Provisional; Region: sbcB; PRK11779 221988003092 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 221988003093 active site 221988003094 catalytic site [active] 221988003095 substrate binding site [chemical binding]; other site 221988003096 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 221988003097 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 221988003098 cell division protein MukB; Provisional; Region: mukB; PRK04863 221988003099 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003100 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 221988003101 MukE-like family; Region: MukE; cl11471 221988003102 KicB killing factor; Region: KicB; cl11468 221988003103 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 221988003104 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 221988003105 Ligand Binding Site [chemical binding]; other site 221988003106 NlpC/P60 family; Region: NLPC_P60; cl11438 221988003107 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 221988003108 IHF dimer interface [polypeptide binding]; other site 221988003109 IHF - DNA interface [nucleotide binding]; other site 221988003110 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 221988003111 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 221988003112 putative tRNA-binding site [nucleotide binding]; other site 221988003113 B3/4 domain; Region: B3_4; cl11458 221988003114 tRNA synthetase B5 domain; Region: B5; cl08394 221988003115 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 221988003116 dimer interface [polypeptide binding]; other site 221988003117 motif 1; other site 221988003118 motif 3; other site 221988003119 motif 2; other site 221988003120 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 221988003121 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 221988003122 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 221988003123 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 221988003124 dimer interface [polypeptide binding]; other site 221988003125 motif 1; other site 221988003126 active site 221988003127 motif 2; other site 221988003128 motif 3; other site 221988003129 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 221988003130 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 221988003131 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 221988003132 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 221988003133 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 protein; Region: CSP_CDS; cd04458 221988003134 DNA-binding site [nucleotide binding]; DNA binding site 221988003135 RNA-binding motif; other site 221988003136 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 221988003137 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 221988003138 active site 221988003139 interdomain interaction site; other site 221988003140 putative metal-binding site [ion binding]; other site 221988003141 nucleotide binding site [chemical binding]; other site 221988003142 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 221988003143 domain I; other site 221988003144 DNA binding groove [nucleotide binding] 221988003145 phosphate binding site [ion binding]; other site 221988003146 domain II; other site 221988003147 domain III; other site 221988003148 nucleotide binding site [chemical binding]; other site 221988003149 catalytic site [active] 221988003150 domain IV; other site 221988003151 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221988003152 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 221988003153 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 221988003154 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 221988003155 LysR family transcriptional regulator; Provisional; Region: PRK14997 221988003156 Helix-turn-helix domains; Region: HTH; cl00088 221988003157 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 221988003158 putative effector binding pocket; other site 221988003159 dimerization interface [polypeptide binding]; other site 221988003160 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 221988003161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003162 Family description; Region: UvrD_C_2; cl15862 221988003163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003164 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 221988003165 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003166 Family description; Region: UvrD_C_2; cl15862 221988003167 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 221988003168 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 221988003169 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 221988003170 Chorismate mutase type II; Region: CM_2; cl00693 221988003171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003172 NeuB family; Region: NeuB; cl00496 221988003173 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 221988003174 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 221988003175 tartrate dehydrogenase; Provisional; Region: PRK08194 221988003176 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 221988003177 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 221988003178 tandem repeat interface [polypeptide binding]; other site 221988003179 oligomer interface [polypeptide binding]; other site 221988003180 active site residues [active] 221988003181 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 221988003182 tandem repeat interface [polypeptide binding]; other site 221988003183 oligomer interface [polypeptide binding]; other site 221988003184 active site residues [active] 221988003185 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 221988003186 putative FMN binding site [chemical binding]; other site 221988003187 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 221988003188 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 221988003189 active site 221988003190 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 221988003191 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 221988003192 DXD motif; other site 221988003193 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 221988003194 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 221988003195 putative active site [active] 221988003196 putative metal binding site [ion binding]; other site 221988003197 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 221988003198 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 221988003199 5S rRNA interface [nucleotide binding]; other site 221988003200 CTC domain interface [polypeptide binding]; other site 221988003201 L16 interface [polypeptide binding]; other site 221988003202 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 221988003203 glycogen phosphorylase; Provisional; Region: PRK14986 221988003204 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 221988003205 homodimer interface [polypeptide binding]; other site 221988003206 active site pocket [active] 221988003207 glycogen synthase; Provisional; Region: glgA; PRK00654 221988003208 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 221988003209 ADP-binding pocket [chemical binding]; other site 221988003210 homodimer interface [polypeptide binding]; other site 221988003211 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 221988003212 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 221988003213 ligand binding site; other site 221988003214 oligomer interface; other site 221988003215 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 221988003216 dimer interface [polypeptide binding]; other site 221988003217 N-terminal domain interface [polypeptide binding]; other site 221988003218 sulfate 1 binding site; other site 221988003219 glycogen debranching enzyme; Provisional; Region: PRK03705 221988003220 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 221988003221 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 221988003222 active site 221988003223 catalytic site [active] 221988003224 glycogen branching enzyme; Provisional; Region: PRK05402 221988003225 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 221988003226 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 221988003227 active site 221988003228 catalytic site [active] 221988003229 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 221988003230 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 221988003231 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 221988003232 Flagellin N-methylase; Region: FliB; cl00497 221988003233 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 221988003234 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221988003235 active site 221988003236 HIGH motif; other site 221988003237 nucleotide binding site [chemical binding]; other site 221988003238 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 221988003239 KMSKS motif; other site 221988003240 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 221988003241 macrolide transporter subunit MacA; Provisional; Region: PRK11578 221988003242 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988003243 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988003244 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 221988003245 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 221988003246 Walker A/P-loop; other site 221988003247 ATP binding site [chemical binding]; other site 221988003248 Q-loop/lid; other site 221988003249 ABC transporter signature motif; other site 221988003250 Walker B; other site 221988003251 D-loop; other site 221988003252 H-loop/switch region; other site 221988003253 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221988003254 FtsX-like permease family; Region: FtsX; cl15850 221988003255 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 221988003256 Protein of unknown function, DUF462; Region: DUF462; cl01190 221988003257 Protein of unknown function, DUF462; Region: DUF462; cl01190 221988003258 Peptidase family M48; Region: Peptidase_M48; cl12018 221988003259 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 221988003260 active site 221988003261 DNA polymerase IV; Validated; Region: PRK02406 221988003262 DNA binding site [nucleotide binding] 221988003263 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 221988003264 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 221988003265 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 221988003266 putative active site [active] 221988003267 putative metal-binding site [ion binding]; other site 221988003268 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 221988003269 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; cl00125 221988003270 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 221988003271 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 221988003272 active site residue [active] 221988003273 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 221988003274 active site residue [active] 221988003275 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; cl00125 221988003276 active site residue [active] 221988003277 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 221988003278 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 221988003279 active site residue [active] 221988003280 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 221988003281 active site residue [active] 221988003282 putative inner membrane protein; Provisional; Region: PRK11099 221988003283 Sulphur transport; Region: Sulf_transp; cl01018 221988003284 putative inner membrane protein; Provisional; Region: PRK11099 221988003285 Sulphur transport; Region: Sulf_transp; cl01018 221988003286 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 protein; Region: CSP_CDS; cd04458 221988003287 DNA-binding site [nucleotide binding]; DNA binding site 221988003288 RNA-binding motif; other site 221988003289 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 221988003290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 221988003291 ligand binding site [chemical binding]; other site 221988003292 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 221988003293 putative inner membrane peptidase; Provisional; Region: PRK11778 221988003294 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 221988003295 tandem repeat interface [polypeptide binding]; other site 221988003296 oligomer interface [polypeptide binding]; other site 221988003297 active site residues [active] 221988003298 anthranilate synthase component I; Provisional; Region: PRK13564 221988003299 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 221988003300 chorismate binding enzyme; Region: Chorismate_bind; cl10555 221988003301 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 221988003302 Glutamine amidotransferase class-I; Region: GATase; pfam00117 221988003303 glutamine binding [chemical binding]; other site 221988003304 catalytic triad [active] 221988003305 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 221988003306 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 221988003307 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 221988003308 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 221988003309 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 221988003310 active site 221988003311 ribulose/triose binding site [chemical binding]; other site 221988003312 phosphate binding site [ion binding]; other site 221988003313 substrate (anthranilate) binding pocket [chemical binding]; other site 221988003314 product (indole) binding pocket [chemical binding]; other site 221988003315 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 monomeric; Region: PRAI; cd00405 221988003316 active site 221988003317 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 221988003318 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 221988003319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988003320 catalytic residue [active] 221988003321 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 221988003322 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 221988003323 substrate binding site [chemical binding]; other site 221988003324 active site 221988003325 catalytic residues [active] 221988003326 heterodimer interface [polypeptide binding]; other site 221988003327 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 221988003328 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 221988003329 G1 box; other site 221988003330 GTP/Mg2+ binding site [chemical binding]; other site 221988003331 Switch I region; other site 221988003332 G2 box; other site 221988003333 G3 box; other site 221988003334 Switch II region; other site 221988003335 G4 box; other site 221988003336 G5 box; other site 221988003337 Nucleoside recognition; Region: Gate; cl00486 221988003338 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 221988003339 Nucleoside recognition; Region: Gate; cl00486 221988003340 FeoA domain; Region: FeoA; cl00838 221988003341 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988003342 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 221988003343 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 221988003344 haemagglutination activity domain; Region: Haemagg_act; cl05436 221988003345 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 221988003346 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 221988003347 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 221988003348 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 221988003349 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 221988003350 RTX toxin acyltransferase family; Region: HlyC; cl01131 221988003351 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 221988003352 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988003353 Surface antigen; Region: Bac_surface_Ag; cl03097 221988003354 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 221988003355 active site 221988003356 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 221988003357 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 221988003358 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 221988003359 putative active site [active] 221988003360 catalytic site [active] 221988003361 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 221988003362 putative active site [active] 221988003363 catalytic site [active] 221988003364 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 221988003365 catalytic core [active] 221988003366 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 221988003367 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221988003368 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 221988003369 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 221988003370 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 221988003371 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 221988003372 dimerization interface 3.5A [polypeptide binding]; other site 221988003373 active site 221988003374 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 221988003375 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 221988003376 trimer interface [polypeptide binding]; other site 221988003377 active site 221988003378 substrate binding site [chemical binding]; other site 221988003379 CoA binding site [chemical binding]; other site 221988003380 sugar efflux transporter B; Provisional; Region: PRK15011 221988003381 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 221988003382 putative substrate translocation pore; other site 221988003383 MarC family integral membrane protein; Region: MarC; cl00919 221988003384 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 221988003385 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 221988003386 active site 221988003387 dimer interface [polypeptide binding]; other site 221988003388 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 221988003389 dimer interface [polypeptide binding]; other site 221988003390 active site 221988003391 alanine racemase; Reviewed; Region: alr; PRK00053 221988003392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 221988003393 active site 221988003394 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221988003395 substrate binding site [chemical binding]; other site 221988003396 catalytic residues [active] 221988003397 dimer interface [polypeptide binding]; other site 221988003398 replicative DNA helicase; Validated; Region: PRK06904 221988003399 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 221988003400 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 221988003401 Walker A motif; other site 221988003402 ATP binding site [chemical binding]; other site 221988003403 Walker B motif; other site 221988003404 DNA binding loops [nucleotide binding] 221988003405 NeuB family; Region: NeuB; cl00496 221988003406 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 221988003407 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 221988003408 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221988003409 FtsX-like permease family; Region: FtsX; cl15850 221988003410 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 221988003411 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 221988003412 Walker A/P-loop; other site 221988003413 ATP binding site [chemical binding]; other site 221988003414 Q-loop/lid; other site 221988003415 ABC transporter signature motif; other site 221988003416 Walker B; other site 221988003417 D-loop; other site 221988003418 H-loop/switch region; other site 221988003419 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 221988003420 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 221988003421 FtsX-like permease family; Region: FtsX; cl15850 221988003422 glycerate dehydrogenase; Provisional; Region: PRK06932 221988003423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003424 NeuB family; Region: NeuB; cl00496 221988003425 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 221988003426 Uncharacterized conserved protein [Function unknown]; Region: COG2912 221988003427 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 221988003428 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 221988003429 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 221988003430 peptide chain release factor 1; Validated; Region: prfA; PRK00591 221988003431 RF-1 domain; Region: RF-1; cl02875 221988003432 RF-1 domain; Region: RF-1; cl02875 221988003433 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 221988003434 active site 1 [active] 221988003435 dimer interface [polypeptide binding]; other site 221988003436 active site 2 [active] 221988003437 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 221988003438 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 221988003439 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 221988003440 pyruvate kinase; Provisional; Region: PRK05826 221988003441 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; cl09155 221988003442 domain interfaces; other site 221988003443 active site 221988003444 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 221988003445 catalytic core [active] 221988003446 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 221988003447 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 221988003448 active site 221988003449 Zn binding site [ion binding]; other site 221988003450 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 221988003451 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 221988003452 Walker A/P-loop; other site 221988003453 ATP binding site [chemical binding]; other site 221988003454 Q-loop/lid; other site 221988003455 ABC transporter signature motif; other site 221988003456 Walker B; other site 221988003457 D-loop; other site 221988003458 H-loop/switch region; other site 221988003459 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 221988003460 siderophore binding site; other site 221988003461 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 221988003462 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 221988003463 ABC-ATPase subunit interface; other site 221988003464 dimer interface [polypeptide binding]; other site 221988003465 putative PBP binding regions; other site 221988003466 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 221988003467 ABC-ATPase subunit interface; other site 221988003468 dimer interface [polypeptide binding]; other site 221988003469 putative PBP binding regions; other site 221988003470 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 221988003471 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988003472 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 221988003473 Walker A/P-loop; other site 221988003474 ATP binding site [chemical binding]; other site 221988003475 Q-loop/lid; other site 221988003476 ABC transporter signature motif; other site 221988003477 Walker B; other site 221988003478 D-loop; other site 221988003479 H-loop/switch region; other site 221988003480 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 221988003481 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 221988003482 N-terminal plug; other site 221988003483 ligand-binding site [chemical binding]; other site 221988003484 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 221988003485 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988003486 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 221988003487 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221988003488 active site 221988003489 catalytic tetrad [active] 221988003490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988003491 Helix-turn-helix domains; Region: HTH; cl00088 221988003492 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 221988003493 putative effector binding pocket; other site 221988003494 putative dimerization interface [polypeptide binding]; other site 221988003495 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 221988003496 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 221988003497 putative substrate binding site [chemical binding]; other site 221988003498 putative ATP binding site [chemical binding]; other site 221988003499 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 221988003500 putative GSH binding site [chemical binding]; other site 221988003501 catalytic residues [active] 221988003502 Repair protein; Region: Repair_PSII; cl01535 221988003503 Repair protein; Region: Repair_PSII; cl01535 221988003504 LemA family; Region: LemA; cl00742 221988003505 outer membrane protein A; Reviewed; Region: PRK10808 221988003506 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988003507 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 221988003508 ligand binding site [chemical binding]; other site 221988003509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 221988003510 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988003511 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 221988003512 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 221988003513 FAD binding domain; Region: FAD_binding_4; pfam01565 221988003514 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 221988003515 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 221988003516 putative active site [active] 221988003517 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 221988003518 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 221988003519 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 221988003520 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 221988003521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003522 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 221988003523 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 221988003524 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 221988003525 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 221988003526 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 221988003527 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 221988003528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988003529 Sugar fermentation stimulation protein; Region: SfsA; cl00647 221988003530 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 221988003531 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 221988003532 active site 221988003533 HIGH motif; other site 221988003534 dimer interface [polypeptide binding]; other site 221988003535 KMSKS motif; other site 221988003536 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; cl09940 221988003537 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 221988003538 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 221988003539 putative substrate binding site [chemical binding]; other site 221988003540 putative ATP binding site [chemical binding]; other site 221988003541 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 221988003542 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 221988003543 Ca binding site [ion binding]; other site 221988003544 active site 221988003545 catalytic site [active] 221988003546 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 221988003547 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 221988003548 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 221988003549 active site turn [active] 221988003550 phosphorylation site [posttranslational modification] 221988003551 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 221988003552 trehalose repressor; Provisional; Region: treR; PRK09492 221988003553 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988003554 DNA binding site [nucleotide binding] 221988003555 domain linker motif; other site 221988003556 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 221988003557 dimerization interface [polypeptide binding]; other site 221988003558 ligand binding site [chemical binding]; other site 221988003559 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 221988003560 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988003561 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988003562 ABC transporter; Region: ABC_tran_2; pfam12848 221988003563 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 221988003564 selenophosphate synthetase; Provisional; Region: PRK00943 221988003565 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 221988003566 dimerization interface [polypeptide binding]; other site 221988003567 putative ATP binding site [chemical binding]; other site 221988003568 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 221988003569 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988003570 DNA binding site [nucleotide binding] 221988003571 domain linker motif; other site 221988003572 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 221988003573 putative ligand binding site [chemical binding]; other site 221988003574 putative dimerization interface [polypeptide binding]; other site 221988003575 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 221988003576 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 221988003577 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 221988003578 sensor protein QseC; Provisional; Region: PRK10337 221988003579 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 221988003580 dimer interface [polypeptide binding]; other site 221988003581 phosphorylation site [posttranslational modification] 221988003582 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 221988003583 ATP binding site [chemical binding]; other site 221988003584 Mg2+ binding site [ion binding]; other site 221988003585 G-X-G motif; other site 221988003586 sensor protein QseC; Provisional; Region: PRK10337 221988003587 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 221988003588 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 221988003589 active site 221988003590 phosphorylation site [posttranslational modification] 221988003591 intermolecular recognition site; other site 221988003592 dimerization interface [polypeptide binding]; other site 221988003593 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 221988003594 DNA binding site [nucleotide binding] 221988003595 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 221988003596 aspartate aminotransferase; Provisional; Region: PRK05764 221988003597 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 221988003598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988003599 homodimer interface [polypeptide binding]; other site 221988003600 catalytic residue [active] 221988003601 sulfite reductase subunit beta; Provisional; Region: PRK13504 221988003602 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 221988003603 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 221988003604 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 221988003605 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988003606 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 221988003607 FAD binding pocket [chemical binding]; other site 221988003608 FAD binding motif [chemical binding]; other site 221988003609 catalytic residues [active] 221988003610 NAD binding pocket [chemical binding]; other site 221988003611 phosphate binding motif [ion binding]; other site 221988003612 beta-alpha-beta structure motif; other site 221988003613 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 221988003614 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 221988003615 CysD dimerization site [polypeptide binding]; other site 221988003616 G1 box; other site 221988003617 putative GEF interaction site [polypeptide binding]; other site 221988003618 GTP/Mg2+ binding site [chemical binding]; other site 221988003619 Switch I region; other site 221988003620 G2 box; other site 221988003621 G3 box; other site 221988003622 Switch II region; other site 221988003623 G4 box; other site 221988003624 G5 box; other site 221988003625 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 221988003626 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 221988003627 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 221988003628 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 221988003629 Active Sites [active] 221988003630 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 221988003631 Active Sites [active] 221988003632 siroheme synthase; Provisional; Region: cysG; PRK10637 221988003633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003634 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 221988003635 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 221988003636 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 221988003637 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 221988003638 sulfate transport protein; Provisional; Region: cysT; CHL00187 221988003639 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 221988003640 dimer interface [polypeptide binding]; other site 221988003641 conserved gate region; other site 221988003642 putative PBP binding loops; other site 221988003643 ABC-ATPase subunit interface; other site 221988003644 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 221988003645 dimer interface [polypeptide binding]; other site 221988003646 conserved gate region; other site 221988003647 putative PBP binding loops; other site 221988003648 ABC-ATPase subunit interface; other site 221988003649 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 221988003650 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 221988003651 Walker A/P-loop; other site 221988003652 ATP binding site [chemical binding]; other site 221988003653 Q-loop/lid; other site 221988003654 ABC transporter signature motif; other site 221988003655 Walker B; other site 221988003656 D-loop; other site 221988003657 H-loop/switch region; other site 221988003658 TOBE-like domain; Region: TOBE_3; pfam12857 221988003659 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 221988003660 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 221988003661 putative ribose interaction site [chemical binding]; other site 221988003662 putative ADP binding site [chemical binding]; other site 221988003663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221988003664 active site 221988003665 nucleotide binding site [chemical binding]; other site 221988003666 HIGH motif; other site 221988003667 KMSKS motif; other site 221988003668 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 221988003669 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 221988003670 putative acyl-acceptor binding pocket; other site 221988003671 hypothetical protein; Provisional; Region: PRK04946 221988003672 Smr domain; Region: Smr; cl02619 221988003673 HemK family putative methylases; Region: hemK_fam; TIGR00536 221988003674 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 221988003675 S-adenosylmethionine binding site [chemical binding]; other site 221988003676 malate dehydrogenase; Provisional; Region: PRK05086 221988003677 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 221988003678 NAD binding site [chemical binding]; other site 221988003679 dimerization interface [polypeptide binding]; other site 221988003680 Substrate binding site [chemical binding]; other site 221988003681 arginine repressor; Provisional; Region: PRK05066 221988003682 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 221988003683 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 221988003684 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 221988003685 TIGR01777 family protein; Region: yfcH 221988003686 putative NAD(P) binding site [chemical binding]; other site 221988003687 putative active site [active] 221988003688 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 221988003689 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 221988003690 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 221988003691 LrgB-like family; Region: LrgB; cl00596 221988003692 LrgA family; Region: LrgA; cl00608 221988003693 Staphylococcal nuclease homologues; Region: SNc; smart00318 221988003694 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 221988003695 Catalytic site; other site 221988003696 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 221988003697 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 221988003698 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221988003699 catalytic residue [active] 221988003700 Fe-S metabolism associated domain; Region: SufE; cl00951 221988003701 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 221988003702 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 221988003703 Walker A/P-loop; other site 221988003704 ATP binding site [chemical binding]; other site 221988003705 Q-loop/lid; other site 221988003706 ABC transporter signature motif; other site 221988003707 Walker B; other site 221988003708 D-loop; other site 221988003709 H-loop/switch region; other site 221988003710 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221988003711 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 221988003712 dimer interface [polypeptide binding]; other site 221988003713 conserved gate region; other site 221988003714 putative PBP binding loops; other site 221988003715 ABC-ATPase subunit interface; other site 221988003716 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 221988003717 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 221988003718 substrate binding pocket [chemical binding]; other site 221988003719 membrane-bound complex binding site; other site 221988003720 hinge residues; other site 221988003721 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 221988003722 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 221988003723 metal binding triad; other site 221988003724 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 221988003725 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 221988003726 metal binding triad; other site 221988003727 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 221988003728 Stringent starvation protein B; Region: SspB; cl01120 221988003729 stringent starvation protein A; Provisional; Region: sspA; PRK09481 221988003730 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 221988003731 C-terminal domain interface [polypeptide binding]; other site 221988003732 putative GSH binding site (G-site) [chemical binding]; other site 221988003733 dimer interface [polypeptide binding]; other site 221988003734 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 221988003735 dimer interface [polypeptide binding]; other site 221988003736 N-terminal domain interface [polypeptide binding]; other site 221988003737 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 221988003738 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 221988003739 23S rRNA interface [nucleotide binding]; other site 221988003740 L3 interface [polypeptide binding]; other site 221988003741 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 221988003742 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 221988003743 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 221988003744 LppC putative lipoprotein; Region: LppC; pfam04348 221988003745 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 221988003746 putative ligand binding site [chemical binding]; other site 221988003747 Restriction endonuclease; Region: Mrr_cat; cl00516 221988003748 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 221988003749 dimer interface [polypeptide binding]; other site 221988003750 active site 221988003751 outer membrane lipoprotein; Provisional; Region: PRK11023 221988003752 BON domain; Region: BON; cl02771 221988003753 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 221988003754 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 221988003755 Cation efflux family; Region: Cation_efflux; cl00316 221988003756 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 221988003757 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 221988003758 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 221988003759 dimer interface [polypeptide binding]; other site 221988003760 active site 221988003761 glycine-pyridoxal phosphate binding site [chemical binding]; other site 221988003762 folate binding site [chemical binding]; other site 221988003763 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 221988003764 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 221988003765 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988003766 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 221988003767 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 221988003768 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 221988003769 purine monophosphate binding site [chemical binding]; other site 221988003770 dimer interface [polypeptide binding]; other site 221988003771 putative catalytic residues [active] 221988003772 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 221988003773 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 221988003774 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 221988003775 putative deacylase active site [active] 221988003776 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 221988003777 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 221988003778 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 221988003779 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 221988003780 DsbD alpha interface [polypeptide binding]; other site 221988003781 catalytic residues [active] 221988003782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221988003783 Helix-turn-helix domains; Region: HTH; cl00088 221988003784 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 221988003785 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988003786 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988003787 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 221988003788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003789 Walker A/P-loop; other site 221988003790 ATP binding site [chemical binding]; other site 221988003791 Q-loop/lid; other site 221988003792 ABC transporter signature motif; other site 221988003793 Walker B; other site 221988003794 D-loop; other site 221988003795 H-loop/switch region; other site 221988003796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003797 Walker A/P-loop; other site 221988003798 ATP binding site [chemical binding]; other site 221988003799 Q-loop/lid; other site 221988003800 ABC transporter signature motif; other site 221988003801 Walker B; other site 221988003802 D-loop; other site 221988003803 H-loop/switch region; other site 221988003804 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 221988003805 ABC-2 type transporter; Region: ABC2_membrane; cl11417 221988003806 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 221988003807 ABC-2 type transporter; Region: ABC2_membrane; cl11417 221988003808 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 221988003809 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 221988003810 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 221988003811 metal binding triad; other site 221988003812 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 221988003813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 221988003814 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 221988003815 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 221988003816 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 221988003817 active site 221988003818 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 221988003819 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 221988003820 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 221988003821 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 221988003822 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 221988003823 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 221988003824 Transglycosylase; Region: Transgly; cl07896 221988003825 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988003826 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 221988003827 Lumazine binding domain; Region: Lum_binding; pfam00677 221988003828 Lumazine binding domain; Region: Lum_binding; pfam00677 221988003829 multidrug efflux protein; Reviewed; Region: PRK01766 221988003830 MatE; Region: MatE; cl10513 221988003831 MatE; Region: MatE; cl10513 221988003832 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 221988003833 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 221988003834 N-terminal plug; other site 221988003835 ligand-binding site [chemical binding]; other site 221988003836 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 221988003837 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988003838 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 221988003839 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 221988003840 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988003841 DNA binding site [nucleotide binding] 221988003842 domain linker motif; other site 221988003843 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 221988003844 dimerization interface [polypeptide binding]; other site 221988003845 ligand binding site [chemical binding]; other site 221988003846 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 221988003847 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 221988003848 putative valine binding site [chemical binding]; other site 221988003849 dimer interface [polypeptide binding]; other site 221988003850 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 221988003851 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 221988003852 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 221988003853 PYR/PP interface [polypeptide binding]; other site 221988003854 dimer interface [polypeptide binding]; other site 221988003855 TPP binding site [chemical binding]; other site 221988003856 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 221988003857 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 221988003858 TPP-binding site [chemical binding]; other site 221988003859 dimer interface [polypeptide binding]; other site 221988003860 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 221988003861 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 221988003862 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 221988003863 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 221988003864 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 221988003865 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 221988003866 putative active site [active] 221988003867 putative substrate binding site [chemical binding]; other site 221988003868 putative cosubstrate binding site; other site 221988003869 catalytic site [active] 221988003870 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 221988003871 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 221988003872 tRNA; other site 221988003873 putative tRNA binding site [nucleotide binding]; other site 221988003874 putative NADP binding site [chemical binding]; other site 221988003875 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 221988003876 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 221988003877 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 221988003878 peptide binding site [polypeptide binding]; other site 221988003879 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 221988003880 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 221988003881 putative metal binding site [ion binding]; other site 221988003882 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 221988003883 arginyl-tRNA synthetase; Region: argS; TIGR00456 221988003884 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 221988003885 active site 221988003886 HIGH motif; other site 221988003887 KMSK motif region; other site 221988003888 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 221988003889 tRNA binding surface [nucleotide binding]; other site 221988003890 anticodon binding site; other site 221988003891 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 221988003892 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 221988003893 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 221988003894 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 221988003895 NlpC/P60 family; Region: NLPC_P60; cl11438 221988003896 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 221988003897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003898 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221988003899 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221988003900 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 221988003901 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 221988003902 E3 interaction surface; other site 221988003903 lipoyl attachment site [posttranslational modification]; other site 221988003904 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 221988003905 E3 interaction surface; other site 221988003906 lipoyl attachment site [posttranslational modification]; other site 221988003907 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 221988003908 E3 interaction surface; other site 221988003909 lipoyl attachment site [posttranslational modification]; other site 221988003910 e3 binding domain; Region: E3_binding; pfam02817 221988003911 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 221988003912 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 221988003913 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 221988003914 dimer interface [polypeptide binding]; other site 221988003915 TPP-binding site [chemical binding]; other site 221988003916 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 221988003917 trimer interface [polypeptide binding]; other site 221988003918 eyelet of channel; other site 221988003919 tellurite resistance protein TehB; Provisional; Region: PRK12335 221988003920 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 221988003921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003922 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 221988003923 putative active site [active] 221988003924 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 221988003925 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003926 Walker A/P-loop; other site 221988003927 ATP binding site [chemical binding]; other site 221988003928 Q-loop/lid; other site 221988003929 ABC transporter signature motif; other site 221988003930 Walker B; other site 221988003931 D-loop; other site 221988003932 H-loop/switch region; other site 221988003933 TOBE domain; Region: TOBE_2; cl01440 221988003934 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 221988003935 dimer interface [polypeptide binding]; other site 221988003936 conserved gate region; other site 221988003937 putative PBP binding loops; other site 221988003938 ABC-ATPase subunit interface; other site 221988003939 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 221988003940 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 221988003941 Helix-turn-helix domains; Region: HTH; cl00088 221988003942 TOBE domain; Region: TOBE_2; cl01440 221988003943 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 221988003944 CoenzymeA binding site [chemical binding]; other site 221988003945 subunit interaction site [polypeptide binding]; other site 221988003946 PHB binding site; other site 221988003947 ferrochelatase; Reviewed; Region: hemH; PRK00035 221988003948 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 221988003949 C-terminal domain interface [polypeptide binding]; other site 221988003950 active site 221988003951 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 221988003952 active site 221988003953 N-terminal domain interface [polypeptide binding]; other site 221988003954 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 221988003955 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221988003956 catalytic residue [active] 221988003957 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 221988003958 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 221988003959 dimer interface [polypeptide binding]; other site 221988003960 FMN binding site [chemical binding]; other site 221988003961 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 221988003962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988003963 CoA-ligase; Region: Ligase_CoA; cl02894 221988003964 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 221988003965 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988003966 CoA-ligase; Region: Ligase_CoA; cl02894 221988003967 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 221988003968 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 221988003969 E3 interaction surface; other site 221988003970 lipoyl attachment site [posttranslational modification]; other site 221988003971 e3 binding domain; Region: E3_binding; pfam02817 221988003972 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 221988003973 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 221988003974 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 221988003975 TPP-binding site [chemical binding]; other site 221988003976 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 221988003977 ribonuclease D; Provisional; Region: PRK10829 221988003978 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 221988003979 catalytic site [active] 221988003980 putative active site [active] 221988003981 putative substrate binding site [chemical binding]; other site 221988003982 HRDC domain; Region: HRDC; cl02578 221988003983 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 221988003984 AMP-binding enzyme; Region: AMP-binding; cl15778 221988003985 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 221988003986 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 221988003987 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 221988003988 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 221988003989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988003990 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 221988003991 nucleotide binding region [chemical binding]; other site 221988003992 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 221988003993 active site 221988003994 phosphate binding residues; other site 221988003995 catalytic residues [active] 221988003996 Membrane transport protein; Region: Mem_trans; cl09117 221988003997 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 221988003998 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988003999 Walker A/P-loop; other site 221988004000 ATP binding site [chemical binding]; other site 221988004001 Q-loop/lid; other site 221988004002 ABC transporter signature motif; other site 221988004003 Walker B; other site 221988004004 D-loop; other site 221988004005 H-loop/switch region; other site 221988004006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221988004007 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 221988004008 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 221988004009 Walker A/P-loop; other site 221988004010 ATP binding site [chemical binding]; other site 221988004011 Q-loop/lid; other site 221988004012 ABC transporter signature motif; other site 221988004013 Walker B; other site 221988004014 D-loop; other site 221988004015 H-loop/switch region; other site 221988004016 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 221988004017 dipeptide transporter; Provisional; Region: PRK10913 221988004018 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 221988004019 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 221988004020 dimer interface [polypeptide binding]; other site 221988004021 conserved gate region; other site 221988004022 putative PBP binding loops; other site 221988004023 ABC-ATPase subunit interface; other site 221988004024 dipeptide transporter permease DppB; Provisional; Region: PRK10914 221988004025 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 221988004026 dimer interface [polypeptide binding]; other site 221988004027 conserved gate region; other site 221988004028 putative PBP binding loops; other site 221988004029 ABC-ATPase subunit interface; other site 221988004030 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 221988004031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004032 Family description; Region: UvrD_C_2; cl15862 221988004033 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 221988004034 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 221988004035 excinuclease ABC subunit B; Provisional; Region: PRK05298 221988004036 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 221988004037 ATP binding site [chemical binding]; other site 221988004038 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 221988004039 nucleotide binding region [chemical binding]; other site 221988004040 ATP-binding site [chemical binding]; other site 221988004041 Ultra-violet resistance protein B; Region: UvrB; pfam12344 221988004042 UvrB/uvrC motif; Region: UVR; pfam02151 221988004043 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 221988004044 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 221988004045 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 221988004046 serine endoprotease; Provisional; Region: PRK10898 221988004047 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 221988004048 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 221988004049 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 221988004050 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 221988004051 catalytic motif [active] 221988004052 Zn binding site [ion binding]; other site 221988004053 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; cl00161 221988004054 ATP cone domain; Region: ATP-cone; pfam03477 221988004055 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 221988004056 substrate binding site [chemical binding]; other site 221988004057 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 221988004058 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 221988004059 transmembrane helices; other site 221988004060 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 221988004061 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 221988004062 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 221988004063 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 221988004064 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 221988004065 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 221988004066 DNA binding residues [nucleotide binding] 221988004067 putative dimer interface [polypeptide binding]; other site 221988004068 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 221988004069 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 221988004070 substrate binding site [chemical binding]; other site 221988004071 catalytic Zn binding site [ion binding]; other site 221988004072 NAD binding site [chemical binding]; other site 221988004073 structural Zn binding site [ion binding]; other site 221988004074 dimer interface [polypeptide binding]; other site 221988004075 Predicted esterase [General function prediction only]; Region: COG0627 221988004076 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; cl12031 221988004077 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221988004078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004079 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 221988004080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004081 Walker A/P-loop; other site 221988004082 ATP binding site [chemical binding]; other site 221988004083 Q-loop/lid; other site 221988004084 ABC transporter signature motif; other site 221988004085 Walker B; other site 221988004086 D-loop; other site 221988004087 H-loop/switch region; other site 221988004088 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 221988004089 putative active site [active] 221988004090 putative metal-binding site [ion binding]; other site 221988004091 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 221988004092 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 221988004093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988004094 Helix-turn-helix domains; Region: HTH; cl00088 221988004095 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 221988004096 putative effector binding pocket; other site 221988004097 putative dimerization interface [polypeptide binding]; other site 221988004098 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 221988004099 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221988004100 recombination factor protein RarA; Reviewed; Region: PRK13342 221988004101 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 221988004102 Walker A motif; other site 221988004103 ATP binding site [chemical binding]; other site 221988004104 Walker B motif; other site 221988004105 arginine finger; other site 221988004106 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 221988004107 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 221988004108 Helix-turn-helix domain; Region: HTH_18; pfam12833 221988004109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988004110 Transposase; Region: DEDD_Tnp_IS110; pfam01548 221988004111 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 221988004112 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 221988004113 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 221988004114 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 221988004115 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 221988004116 Helix-turn-helix domains; Region: HTH; cl00088 221988004117 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 221988004118 putative substrate binding pocket [chemical binding]; other site 221988004119 putative dimerization interface [polypeptide binding]; other site 221988004120 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 221988004121 hydrophobic ligand binding site; other site 221988004122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004123 NADH(P)-binding; Region: NAD_binding_10; pfam13460 221988004124 NAD(P) binding site [chemical binding]; other site 221988004125 active site 221988004126 short chain dehydrogenase; Provisional; Region: PRK06940 221988004127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004128 NAD(P) binding site [chemical binding]; other site 221988004129 active site 221988004130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 221988004131 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 221988004132 putative substrate translocation pore; other site 221988004133 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; cl00162 221988004134 HPr interaction site; other site 221988004135 glycerol kinase (GK) interaction site [polypeptide binding]; other site 221988004136 active site 221988004137 phosphorylation site [posttranslational modification] 221988004138 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 221988004139 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 221988004140 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 221988004141 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 221988004142 putative N- and C-terminal domain interface [polypeptide binding]; other site 221988004143 putative active site [active] 221988004144 putative MgATP binding site [chemical binding]; other site 221988004145 catalytic site [active] 221988004146 metal binding site [ion binding]; metal-binding site 221988004147 putative carbohydrate binding site [chemical binding]; other site 221988004148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004149 short chain dehydrogenase; Provisional; Region: PRK06114 221988004150 NAD(P) binding site [chemical binding]; other site 221988004151 active site 221988004152 Helix-turn-helix domains; Region: HTH; cl00088 221988004153 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 221988004154 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 221988004155 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221988004156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004157 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 221988004158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988004159 Helix-turn-helix domains; Region: HTH; cl00088 221988004160 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 221988004161 dimerization interface [polypeptide binding]; other site 221988004162 YCII-related domain; Region: YCII; cl00999 221988004163 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988004164 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 221988004165 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 221988004166 active site 221988004167 catalytic tetrad [active] 221988004168 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; cl12031 221988004169 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 221988004170 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 221988004171 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 221988004172 classical (c) SDRs; Region: SDR_c; cd05233 221988004173 NAD(P) binding site [chemical binding]; other site 221988004174 active site 221988004175 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 221988004176 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 221988004177 active site 221988004178 catalytic tetrad [active] 221988004179 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 221988004180 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 221988004181 potential catalytic triad [active] 221988004182 conserved cys residue [active] 221988004183 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221988004184 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221988004185 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 221988004186 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 221988004187 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988004188 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 221988004189 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 221988004190 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 221988004191 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 221988004192 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 221988004193 DNA binding residues [nucleotide binding] 221988004194 dimer interface [polypeptide binding]; other site 221988004195 putative metal binding site [ion binding]; other site 221988004196 Cation efflux family; Region: Cation_efflux; cl00316 221988004197 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 221988004198 active site 221988004199 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 221988004200 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 221988004201 ATP binding site [chemical binding]; other site 221988004202 putative Mg++ binding site [ion binding]; other site 221988004203 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 221988004204 nucleotide binding region [chemical binding]; other site 221988004205 ATP-binding site [chemical binding]; other site 221988004206 Helicase associated domain (HA2); Region: HA2; cl04503 221988004207 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 221988004208 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 221988004209 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988004210 Protein of unknown function (DUF441); Region: DUF441; cl01041 221988004211 Membrane transport protein; Region: Mem_trans; cl09117 221988004212 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 221988004213 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 221988004214 RNA binding site [nucleotide binding]; other site 221988004215 active site 221988004216 Ribosome-binding factor A; Region: RBFA; cl00542 221988004217 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 221988004218 translation initiation factor IF-2; Region: IF-2; TIGR00487 221988004219 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 221988004220 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 221988004221 G1 box; other site 221988004222 putative GEF interaction site [polypeptide binding]; other site 221988004223 GTP/Mg2+ binding site [chemical binding]; other site 221988004224 Switch I region; other site 221988004225 G2 box; other site 221988004226 G3 box; other site 221988004227 Switch II region; other site 221988004228 G4 box; other site 221988004229 G5 box; other site 221988004230 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 221988004231 Translation-initiation factor 2; Region: IF-2; pfam11987 221988004232 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 221988004233 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 221988004234 NusA N-terminal domain; Region: NusA_N; pfam08529 221988004235 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 221988004236 RNA binding site [nucleotide binding]; other site 221988004237 homodimer interface [polypeptide binding]; other site 221988004238 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 221988004239 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 221988004240 G-X-X-G motif; other site 221988004241 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 221988004242 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 221988004243 ribosome maturation protein RimP; Reviewed; Region: PRK00092 221988004244 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 221988004245 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 221988004246 Sm1 motif; other site 221988004247 predicted subunit interaction site [polypeptide binding]; other site 221988004248 RNA binding pocket [nucleotide binding]; other site 221988004249 Sm2 motif; other site 221988004250 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 221988004251 active site 221988004252 substrate binding site [chemical binding]; other site 221988004253 ATP binding site [chemical binding]; other site 221988004254 bifunctional UGMP family protein/serine/threonine protein kinase; Validated; Region: PRK09605 221988004255 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 221988004256 seryl-tRNA synthetase; Provisional; Region: PRK05431 221988004257 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 221988004258 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 bound...; Region: SerRS_core; cd00770 221988004259 dimer interface [polypeptide binding]; other site 221988004260 active site 221988004261 motif 1; other site 221988004262 motif 2; other site 221988004263 motif 3; other site 221988004264 recombination factor protein RarA; Reviewed; Region: PRK13342 221988004265 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 221988004266 Walker A motif; other site 221988004267 ATP binding site [chemical binding]; other site 221988004268 Walker B motif; other site 221988004269 arginine finger; other site 221988004270 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 221988004271 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 221988004272 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 221988004273 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 221988004274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004275 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 221988004276 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 221988004277 Helix-turn-helix domains; Region: HTH; cl00088 221988004278 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 221988004279 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 221988004280 metal binding site [ion binding]; metal-binding site 221988004281 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 221988004282 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 221988004283 putative ATP binding site [chemical binding]; other site 221988004284 putative substrate interface [chemical binding]; other site 221988004285 murein transglycosylase A; Provisional; Region: mltA; PRK11162 221988004286 MltA specific insert domain; Region: MltA; cl08398 221988004287 3D domain; Region: 3D; cl01439 221988004288 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 221988004289 dimerization interface [polypeptide binding]; other site 221988004290 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 221988004291 ATP binding site [chemical binding]; other site 221988004292 Hydrogenase formation hypA family; Region: HypD; cl12072 221988004293 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 221988004294 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004295 Uncharacterized conserved protein [Function unknown]; Region: COG0327 221988004296 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 221988004297 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 221988004298 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 221988004299 homotetramer interface [polypeptide binding]; other site 221988004300 NAD binding site [chemical binding]; other site 221988004301 homodimer interface [polypeptide binding]; other site 221988004302 substrate binding site [chemical binding]; other site 221988004303 active site 221988004304 exoribonuclease II; Provisional; Region: PRK05054 221988004305 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 221988004306 RNB domain; Region: RNB; pfam00773 221988004307 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 221988004308 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 221988004309 translation initiation factor Sui1; Validated; Region: PRK06824 221988004310 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 221988004311 Predicted RNA interaction site [nucleotide binding]; other site 221988004312 putative binding site; other site 221988004313 Mutations affecting start-site selection; other site 221988004314 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 contains two...; Region: OMP_decarboxylase_like; cd04725 221988004315 active site 221988004316 dimer interface [polypeptide binding]; other site 221988004317 tetratricopeptide repeat protein; Provisional; Region: PRK11788 221988004318 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 221988004319 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 221988004320 IHF dimer interface [polypeptide binding]; other site 221988004321 IHF - DNA interface [nucleotide binding]; other site 221988004322 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 221988004323 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 221988004324 RNA binding site [nucleotide binding]; other site 221988004325 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 221988004326 RNA binding site [nucleotide binding]; other site 221988004327 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 221988004328 RNA binding site [nucleotide binding]; other site 221988004329 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 221988004330 RNA binding site [nucleotide binding]; other site 221988004331 S1_RPS1_repeat_ec5: 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 221988004332 RNA binding site [nucleotide binding]; other site 221988004333 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 221988004334 RNA binding site [nucleotide binding]; other site 221988004335 cytidylate kinase; Provisional; Region: cmk; PRK00023 221988004336 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 221988004337 CMP-binding site; other site 221988004338 The sites determining sugar specificity; other site 221988004339 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 221988004340 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 221988004341 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 221988004342 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 221988004343 Ligand Binding Site [chemical binding]; other site 221988004344 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 221988004345 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 221988004346 putative NAD(P) binding site [chemical binding]; other site 221988004347 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 221988004348 ATP binding site [chemical binding]; other site 221988004349 active site 221988004350 substrate binding site [chemical binding]; other site 221988004351 tyrosine kinase; Provisional; Region: PRK11519 221988004352 Chain length determinant protein; Region: Wzz; cl15801 221988004353 Chain length determinant protein; Region: Wzz; cl15801 221988004354 polysaccharide export protein Wza; Provisional; Region: PRK15078 221988004355 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 221988004356 SLBB domain; Region: SLBB; pfam10531 221988004357 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 221988004358 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 221988004359 NAD(P) binding site [chemical binding]; other site 221988004360 homodimer interface [polypeptide binding]; other site 221988004361 substrate binding site [chemical binding]; other site 221988004362 active site 221988004363 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 221988004364 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 221988004365 inhibitor-cofactor binding pocket; inhibition site 221988004366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004367 catalytic residue [active] 221988004368 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 221988004369 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988004370 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 221988004371 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988004372 Bacterial sugar transferase; Region: Bac_transf; cl00939 221988004373 O-Antigen ligase; Region: Wzy_C; cl04850 221988004374 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 221988004375 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 221988004376 MatE; Region: MatE; cl10513 221988004377 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 221988004378 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 221988004379 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 221988004380 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 221988004381 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 221988004382 inhibitor-cofactor binding pocket; inhibition site 221988004383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004384 catalytic residue [active] 221988004385 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 221988004386 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 221988004387 putative trimer interface [polypeptide binding]; other site 221988004388 putative active site [active] 221988004389 putative substrate binding site [chemical binding]; other site 221988004390 putative CoA binding site [chemical binding]; other site 221988004391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004392 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 221988004393 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 221988004394 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 221988004395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004396 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 221988004397 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 221988004398 G1 box; other site 221988004399 putative GEF interaction site [polypeptide binding]; other site 221988004400 GTP/Mg2+ binding site [chemical binding]; other site 221988004401 Switch I region; other site 221988004402 G2 box; other site 221988004403 G3 box; other site 221988004404 Switch II region; other site 221988004405 G4 box; other site 221988004406 G5 box; other site 221988004407 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 221988004408 two-component response regulator; Provisional; Region: PRK11173 221988004409 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 221988004410 active site 221988004411 phosphorylation site [posttranslational modification] 221988004412 intermolecular recognition site; other site 221988004413 dimerization interface [polypeptide binding]; other site 221988004414 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 221988004415 DNA binding site [nucleotide binding] 221988004416 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 221988004417 SmpB-tmRNA interface; other site 221988004418 recombination protein RecR; Reviewed; Region: recR; PRK00076 221988004419 RecR protein; Region: RecR; pfam02132 221988004420 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 221988004421 putative active site [active] 221988004422 putative metal-binding site [ion binding]; other site 221988004423 tetramer interface [polypeptide binding]; other site 221988004424 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 221988004425 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; cl00162 221988004426 HPr interaction site; other site 221988004427 glycerol kinase (GK) interaction site [polypeptide binding]; other site 221988004428 active site 221988004429 phosphorylation site [posttranslational modification] 221988004430 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 221988004431 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 221988004432 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 221988004433 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; cl09155 221988004434 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 221988004435 dimerization domain swap beta strand [polypeptide binding]; other site 221988004436 regulatory protein interface [polypeptide binding]; other site 221988004437 active site 221988004438 regulatory phosphorylation site [posttranslational modification]; other site 221988004439 GTPase RsgA; Reviewed; Region: PRK12288 221988004440 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 221988004441 RNA binding site [nucleotide binding]; other site 221988004442 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 221988004443 GTPase/Zn-binding domain interface [polypeptide binding]; other site 221988004444 GTP/Mg2+ binding site [chemical binding]; other site 221988004445 G4 box; other site 221988004446 G5 box; other site 221988004447 G1 box; other site 221988004448 Switch I region; other site 221988004449 G2 box; other site 221988004450 G3 box; other site 221988004451 Switch II region; other site 221988004452 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 221988004453 catalytic site [active] 221988004454 putative active site [active] 221988004455 putative substrate binding site [chemical binding]; other site 221988004456 dimer interface [polypeptide binding]; other site 221988004457 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 221988004458 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 221988004459 active site 221988004460 metal binding site [ion binding]; metal-binding site 221988004461 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 221988004462 putative peptidoglycan binding site; other site 221988004463 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 221988004464 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 221988004465 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 221988004466 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 221988004467 putative peptidoglycan binding site; other site 221988004468 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 221988004469 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 221988004470 putative peptidoglycan binding site; other site 221988004471 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 221988004472 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 221988004473 ATP binding site [chemical binding]; other site 221988004474 Mg2+ binding site [ion binding]; other site 221988004475 G-X-G motif; other site 221988004476 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 221988004477 ATP binding site [chemical binding]; other site 221988004478 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 221988004479 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004480 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 221988004481 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 221988004482 Sm1 motif; other site 221988004483 intra - hexamer interaction site; other site 221988004484 inter - hexamer interaction site [polypeptide binding]; other site 221988004485 nucleotide binding pocket [chemical binding]; other site 221988004486 Sm2 motif; other site 221988004487 GTPase HflX; Provisional; Region: PRK11058 221988004488 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 221988004489 HflX GTPase family; Region: HflX; cd01878 221988004490 G1 box; other site 221988004491 GTP/Mg2+ binding site [chemical binding]; other site 221988004492 Switch I region; other site 221988004493 G2 box; other site 221988004494 G3 box; other site 221988004495 Switch II region; other site 221988004496 G4 box; other site 221988004497 G5 box; other site 221988004498 cystathionine beta-lyase; Provisional; Region: PRK08114 221988004499 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 221988004500 homodimer interface [polypeptide binding]; other site 221988004501 substrate-cofactor binding pocket; other site 221988004502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004503 catalytic residue [active] 221988004504 peroxidase; Provisional; Region: PRK15000 221988004505 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 221988004506 dimer interface [polypeptide binding]; other site 221988004507 decamer (pentamer of dimers) interface [polypeptide binding]; other site 221988004508 catalytic triad [active] 221988004509 peroxidatic and resolving cysteines [active] 221988004510 Protein of unknown function, DUF488; Region: DUF488; cl01246 221988004511 biotin synthase; Region: bioB; TIGR00433 221988004512 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 221988004513 FeS/SAM binding site; other site 221988004514 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 221988004515 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 221988004516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004517 Walker A/P-loop; other site 221988004518 ATP binding site [chemical binding]; other site 221988004519 Q-loop/lid; other site 221988004520 ABC transporter signature motif; other site 221988004521 Walker B; other site 221988004522 D-loop; other site 221988004523 H-loop/switch region; other site 221988004524 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 221988004525 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 221988004526 dimer interface [polypeptide binding]; other site 221988004527 conserved gate region; other site 221988004528 putative PBP binding loops; other site 221988004529 ABC-ATPase subunit interface; other site 221988004530 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 221988004531 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 221988004532 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 221988004533 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 221988004534 fructokinase; Reviewed; Region: PRK09557 221988004535 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 221988004536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004537 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 221988004538 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 221988004539 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 221988004540 Metal-binding active site; metal-binding site 221988004541 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 221988004542 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 221988004543 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 221988004544 putative substrate translocation pore; other site 221988004545 Transcriptional regulators [Transcription]; Region: PurR; COG1609 221988004546 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 221988004547 DNA binding site [nucleotide binding] 221988004548 domain linker motif; other site 221988004549 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 221988004550 dimerization interface [polypeptide binding]; other site 221988004551 ligand binding site [chemical binding]; other site 221988004552 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 221988004553 active site 221988004554 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 221988004555 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 221988004556 dimerization interface [polypeptide binding]; other site 221988004557 active site 221988004558 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 221988004559 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 221988004560 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 221988004561 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 221988004562 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 221988004563 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 221988004564 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 221988004565 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988004566 active site 221988004567 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 221988004568 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 221988004569 catalytic residues [active] 221988004570 alpha helical domain; other site 221988004571 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 221988004572 DHH family; Region: DHH; pfam01368 221988004573 DHHA1 domain; Region: DHHA1; pfam02272 221988004574 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 221988004575 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 221988004576 dimerization domain [polypeptide binding]; other site 221988004577 dimer interface [polypeptide binding]; other site 221988004578 catalytic residues [active] 221988004579 peptide chain release factor 2; Provisional; Region: PRK08787 221988004580 RF-1 domain; Region: RF-1; cl02875 221988004581 RF-1 domain; Region: RF-1; cl02875 221988004582 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 221988004583 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 221988004584 dimer interface [polypeptide binding]; other site 221988004585 putative anticodon binding site; other site 221988004586 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 221988004587 motif 1; other site 221988004588 active site 221988004589 motif 2; other site 221988004590 motif 3; other site 221988004591 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 221988004592 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 221988004593 Acylphosphatase; Region: Acylphosphatase; cl00551 221988004594 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 221988004595 HypF finger; Region: zf-HYPF; pfam07503 221988004596 HypF finger; Region: zf-HYPF; pfam07503 221988004597 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 221988004598 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 221988004599 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 221988004600 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 221988004601 multifunctional aminopeptidase A; Provisional; Region: PRK00913 221988004602 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 221988004603 interface (dimer of trimers) [polypeptide binding]; other site 221988004604 Substrate-binding/catalytic site; other site 221988004605 Zn-binding sites [ion binding]; other site 221988004606 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 221988004607 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221988004608 NAD(P) binding site [chemical binding]; other site 221988004609 catalytic residues [active] 221988004610 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 221988004611 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 221988004612 putative metal binding site [ion binding]; other site 221988004613 dimer interface [polypeptide binding]; other site 221988004614 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 221988004615 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 221988004616 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 221988004617 allantoate amidohydrolase; Reviewed; Region: PRK09290 221988004618 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 221988004619 active site 221988004620 metal binding site [ion binding]; metal-binding site 221988004621 dimer interface [polypeptide binding]; other site 221988004622 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 221988004623 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 221988004624 HIGH motif; other site 221988004625 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 221988004626 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 221988004627 active site 221988004628 KMSKS motif; other site 221988004629 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 221988004630 tRNA binding surface [nucleotide binding]; other site 221988004631 anticodon binding site; other site 221988004632 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 221988004633 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 221988004634 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 221988004635 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 221988004636 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 221988004637 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 221988004638 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 221988004639 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 221988004640 CPxP motif; other site 221988004641 Preprotein translocase subunit; Region: YajC; cl00806 221988004642 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 221988004643 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 221988004644 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 221988004645 Protein export membrane protein; Region: SecD_SecF; cl14618 221988004646 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 221988004647 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 221988004648 Protein export membrane protein; Region: SecD_SecF; cl14618 221988004649 lytic murein transglycosylase; Provisional; Region: PRK11619 221988004650 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 catalyze...; Region: LT_GEWL; cd00254 221988004651 N-acetyl-D-glucosamine binding site [chemical binding]; other site 221988004652 catalytic residue [active] 221988004653 Helix-turn-helix domains; Region: HTH; cl00088 221988004654 Transglycosylase; Region: Transgly; cl07896 221988004655 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 221988004656 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 221988004657 putative NAD(P) binding site [chemical binding]; other site 221988004658 homotetramer interface [polypeptide binding]; other site 221988004659 homodimer interface [polypeptide binding]; other site 221988004660 active site 221988004661 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 221988004662 Sulfatase; Region: Sulfatase; cl10460 221988004663 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 221988004664 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 221988004665 active site 221988004666 catalytic site [active] 221988004667 substrate binding site [chemical binding]; other site 221988004668 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 221988004669 RNA/DNA hybrid binding site [nucleotide binding]; other site 221988004670 active site 221988004671 Protein of unknown function (DUF496); Region: DUF496; cl09955 221988004672 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 221988004673 homodimer interface [polypeptide binding]; other site 221988004674 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 221988004675 substrate-cofactor binding pocket; other site 221988004676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004677 catalytic residue [active] 221988004678 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 221988004679 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 221988004680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004681 homodimer interface [polypeptide binding]; other site 221988004682 catalytic residue [active] 221988004683 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 221988004684 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 221988004685 hinge; other site 221988004686 active site 221988004687 putative transposase OrfB; Reviewed; Region: PHA02517 221988004688 HTH-like domain; Region: HTH_21; pfam13276 221988004689 Integrase core domain; Region: rve; cl01316 221988004690 Integrase core domain; Region: rve_3; cl15866 221988004691 Helix-turn-helix domains; Region: HTH; cl00088 221988004692 putative arabinose transporter; Provisional; Region: PRK03545 221988004693 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 221988004694 putative substrate translocation pore; other site 221988004695 AsmA-like C-terminal region; Region: AsmA_2; cl15864 221988004696 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 221988004697 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 221988004698 trimer interface [polypeptide binding]; other site 221988004699 active site 221988004700 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 221988004701 Sugar specificity; other site 221988004702 Pyrimidine base specificity; other site 221988004703 ATP-binding site [chemical binding]; other site 221988004704 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 221988004705 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 221988004706 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 221988004707 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 221988004708 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 221988004709 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 221988004710 dimer interface [polypeptide binding]; other site 221988004711 conserved gate region; other site 221988004712 putative PBP binding loops; other site 221988004713 ABC-ATPase subunit interface; other site 221988004714 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 221988004715 dimer interface [polypeptide binding]; other site 221988004716 conserved gate region; other site 221988004717 putative PBP binding loops; other site 221988004718 ABC-ATPase subunit interface; other site 221988004719 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 221988004720 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 221988004721 Walker A/P-loop; other site 221988004722 ATP binding site [chemical binding]; other site 221988004723 Q-loop/lid; other site 221988004724 ABC transporter signature motif; other site 221988004725 Walker B; other site 221988004726 D-loop; other site 221988004727 H-loop/switch region; other site 221988004728 TOBE domain; Region: TOBE_2; cl01440 221988004729 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 221988004730 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 221988004731 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 221988004732 S-adenosylmethionine binding site [chemical binding]; other site 221988004733 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 221988004734 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 221988004735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 221988004736 Coenzyme A binding pocket [chemical binding]; other site 221988004737 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 221988004738 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 221988004739 dimer interface [polypeptide binding]; other site 221988004740 active site 221988004741 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 221988004742 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; cl15754 221988004743 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 221988004744 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 221988004745 NAD binding site [chemical binding]; other site 221988004746 substrate binding site [chemical binding]; other site 221988004747 homodimer interface [polypeptide binding]; other site 221988004748 active site 221988004749 GTPase CgtA; Reviewed; Region: obgE; PRK12298 221988004750 GTP1/OBG; Region: GTP1_OBG; pfam01018 221988004751 Obg GTPase; Region: Obg; cd01898 221988004752 G1 box; other site 221988004753 GTP/Mg2+ binding site [chemical binding]; other site 221988004754 Switch I region; other site 221988004755 G2 box; other site 221988004756 G3 box; other site 221988004757 Switch II region; other site 221988004758 G4 box; other site 221988004759 G5 box; other site 221988004760 EamA-like transporter family; Region: EamA; cl01037 221988004761 Predicted permeases [General function prediction only]; Region: RarD; COG2962 221988004762 EamA-like transporter family; Region: EamA; cl01037 221988004763 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 221988004764 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 221988004765 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 221988004766 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 221988004767 substrate binding pocket [chemical binding]; other site 221988004768 chain length determination region; other site 221988004769 substrate-Mg2+ binding site; other site 221988004770 catalytic residues [active] 221988004771 aspartate-rich region 1; other site 221988004772 active site lid residues [active] 221988004773 aspartate-rich region 2; other site 221988004774 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 221988004775 putative transposase OrfB; Reviewed; Region: PHA02517 221988004776 HTH-like domain; Region: HTH_21; pfam13276 221988004777 Integrase core domain; Region: rve; cl01316 221988004778 Integrase core domain; Region: rve_3; cl15866 221988004779 Helix-turn-helix domains; Region: HTH; cl00088 221988004780 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 221988004781 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 221988004782 putative catalytic cysteine [active] 221988004783 Predicted membrane protein [Function unknown]; Region: COG2860 221988004784 UPF0126 domain; Region: UPF0126; pfam03458 221988004785 UPF0126 domain; Region: UPF0126; pfam03458 221988004786 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 221988004787 Dak1 domain; Region: Dak1; pfam02733 221988004788 DAK2 domain; Region: Dak2; cl03685 221988004789 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; cl00025 221988004790 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 221988004791 L-xylulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 221988004792 putative N- and C-terminal domain interface [polypeptide binding]; other site 221988004793 putative active site [active] 221988004794 putative MgATP binding site [chemical binding]; other site 221988004795 catalytic site [active] 221988004796 metal binding site [ion binding]; metal-binding site 221988004797 putative xylulose binding site [chemical binding]; other site 221988004798 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 221988004799 TM-ABC transporter signature motif; other site 221988004800 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 221988004801 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 221988004802 Walker A/P-loop; other site 221988004803 ATP binding site [chemical binding]; other site 221988004804 Q-loop/lid; other site 221988004805 ABC transporter signature motif; other site 221988004806 Walker B; other site 221988004807 D-loop; other site 221988004808 H-loop/switch region; other site 221988004809 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 221988004810 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 221988004811 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 221988004812 ligand binding site [chemical binding]; other site 221988004813 aspartate kinase III; Validated; Region: PRK09084 221988004814 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 221988004815 nucleotide binding site [chemical binding]; other site 221988004816 substrate binding site [chemical binding]; other site 221988004817 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 221988004818 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 221988004819 dimer interface [polypeptide binding]; other site 221988004820 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 221988004821 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221988004822 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221988004823 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 221988004824 AMP binding site [chemical binding]; other site 221988004825 metal binding site [ion binding]; metal-binding site 221988004826 active site 221988004827 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 221988004828 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 221988004829 putative C-terminal domain interface [polypeptide binding]; other site 221988004830 putative GSH binding site (G-site) [chemical binding]; other site 221988004831 putative dimer interface [polypeptide binding]; other site 221988004832 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 221988004833 putative N-terminal domain interface [polypeptide binding]; other site 221988004834 putative dimer interface [polypeptide binding]; other site 221988004835 putative substrate binding pocket (H-site) [chemical binding]; other site 221988004836 FtsH protease regulator HflK; Provisional; Region: PRK10930 221988004837 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 221988004838 FtsH protease regulator HflC; Provisional; Region: PRK11029 221988004839 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 221988004840 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 221988004841 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 221988004842 GDP-binding site [chemical binding]; other site 221988004843 ACT binding site; other site 221988004844 IMP binding site; other site 221988004845 ribonuclease E; Reviewed; Region: rne; PRK10811 221988004846 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 221988004847 homodimer interface [polypeptide binding]; other site 221988004848 oligonucleotide binding site [chemical binding]; other site 221988004849 ribonuclease E; Reviewed; Region: rne; PRK10811 221988004850 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 221988004851 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 221988004852 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; cl09940 221988004853 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 221988004854 active site 221988004855 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 221988004856 catalytic residues [active] 221988004857 cystathionine gamma-synthase; Reviewed; Region: PRK08247 221988004858 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 221988004859 homodimer interface [polypeptide binding]; other site 221988004860 substrate-cofactor binding pocket; other site 221988004861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988004862 catalytic residue [active] 221988004863 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 221988004864 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221988004865 putative active site [active] 221988004866 putative metal binding site [ion binding]; other site 221988004867 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 221988004868 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 221988004869 active site 221988004870 HIGH motif; other site 221988004871 KMSKS motif; other site 221988004872 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 221988004873 tRNA binding surface [nucleotide binding]; other site 221988004874 anticodon binding site; other site 221988004875 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 221988004876 dimer interface [polypeptide binding]; other site 221988004877 putative tRNA-binding site [nucleotide binding]; other site 221988004878 antiporter inner membrane protein; Provisional; Region: PRK11670 221988004879 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 221988004880 Walker A motif; other site 221988004881 poxB regulator PoxA; Provisional; Region: PRK09350 221988004882 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 attaches...; Region: class_II_aaRS-like_core; cl00268 221988004883 motif 1; other site 221988004884 dimer interface [polypeptide binding]; other site 221988004885 active site 221988004886 motif 2; other site 221988004887 motif 3; other site 221988004888 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 221988004889 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 221988004890 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 221988004891 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 221988004892 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 221988004893 CRISPR/Cas system-associated protein Csx16; Region: Csx16_III-U; cd09695 221988004894 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 221988004895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 221988004896 Transposase; Region: DDE_Tnp_ISL3; pfam01610 221988004897 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 221988004898 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 221988004899 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 221988004900 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 221988004901 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 221988004902 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 221988004903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004904 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 221988004905 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 221988004906 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; cl00159 221988004907 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 221988004908 D-subunit interface [polypeptide binding]; other site 221988004909 Iron-sulfur protein interface; other site 221988004910 proximal quinone binding site [chemical binding]; other site 221988004911 distal quinone binding site [chemical binding]; other site 221988004912 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 221988004913 Iron-sulfur protein interface; other site 221988004914 proximal quinone binding site [chemical binding]; other site 221988004915 C-subunit interface; other site 221988004916 distal quinone binding site; other site 221988004917 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 221988004918 Chorismate mutase type II; Region: CM_2; cl00693 221988004919 Prephenate dehydratase; Region: PDT; pfam00800 221988004920 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 221988004921 putative L-Phe binding site [chemical binding]; other site 221988004922 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 221988004923 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 221988004924 active site 221988004925 metal binding site [ion binding]; metal-binding site 221988004926 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 221988004927 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 221988004928 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 221988004929 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 221988004930 nucleotide binding site [chemical binding]; other site 221988004931 SulA interaction site; other site 221988004932 cell division protein FtsA; Region: ftsA; TIGR01174 221988004933 Cell division protein FtsA; Region: FtsA; cl11496 221988004934 Cell division protein FtsA; Region: FtsA; cl11496 221988004935 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 221988004936 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 221988004937 Cell division protein FtsQ; Region: FtsQ; pfam03799 221988004938 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 221988004939 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 221988004940 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988004941 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 221988004942 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221988004943 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221988004944 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221988004945 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 221988004946 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 221988004947 active site 221988004948 homodimer interface [polypeptide binding]; other site 221988004949 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 221988004950 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 221988004951 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221988004952 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 221988004953 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 221988004954 Mg++ binding site [ion binding]; other site 221988004955 putative catalytic motif [active] 221988004956 putative substrate binding site [chemical binding]; other site 221988004957 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 221988004958 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221988004959 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221988004960 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221988004961 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 221988004962 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 221988004963 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 221988004964 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 221988004965 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 221988004966 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221988004967 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988004968 Septum formation initiator; Region: DivIC; cl11433 221988004969 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 221988004970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988004971 cell division protein MraZ; Reviewed; Region: PRK00326 221988004972 MraZ protein; Region: MraZ; pfam02381 221988004973 MraZ protein; Region: MraZ; pfam02381 221988004974 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 221988004975 Carbon starvation protein CstA; Region: CstA; pfam02554 221988004976 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 221988004977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004978 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 221988004979 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 221988004980 LysE type translocator; Region: LysE; cl00565 221988004981 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 221988004982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988004983 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 221988004984 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 221988004985 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988004986 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 221988004987 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 221988004988 substrate binding pocket [chemical binding]; other site 221988004989 membrane-bound complex binding site; other site 221988004990 hinge residues; other site 221988004991 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 221988004992 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 221988004993 Walker A/P-loop; other site 221988004994 ATP binding site [chemical binding]; other site 221988004995 Q-loop/lid; other site 221988004996 ABC transporter signature motif; other site 221988004997 Walker B; other site 221988004998 D-loop; other site 221988004999 H-loop/switch region; other site 221988005000 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221988005001 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 221988005002 dimer interface [polypeptide binding]; other site 221988005003 conserved gate region; other site 221988005004 putative PBP binding loops; other site 221988005005 ABC-ATPase subunit interface; other site 221988005006 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 221988005007 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 221988005008 dimer interface [polypeptide binding]; other site 221988005009 conserved gate region; other site 221988005010 putative PBP binding loops; other site 221988005011 ABC-ATPase subunit interface; other site 221988005012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988005013 Helix-turn-helix domains; Region: HTH; cl00088 221988005014 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 221988005015 dimerization interface [polypeptide binding]; other site 221988005016 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 221988005017 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 221988005018 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 221988005019 FeS/SAM binding site; other site 221988005020 TRAM domain; Region: TRAM; cl01282 221988005021 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 221988005022 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 221988005023 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 221988005024 active site 221988005025 metal binding site [ion binding]; metal-binding site 221988005026 hexamer interface [polypeptide binding]; other site 221988005027 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 221988005028 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 221988005029 dimer interface [polypeptide binding]; other site 221988005030 ADP-ribose binding site [chemical binding]; other site 221988005031 active site 221988005032 nudix motif; other site 221988005033 metal binding site [ion binding]; metal-binding site 221988005034 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 221988005035 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 221988005036 heat shock protein 90; Provisional; Region: PRK05218 221988005037 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 221988005038 ATP binding site [chemical binding]; other site 221988005039 Mg2+ binding site [ion binding]; other site 221988005040 G-X-G motif; other site 221988005041 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 221988005042 hypothetical protein; Provisional; Region: PRK04860 221988005043 SprT homologues; Region: SprT; cl01182 221988005044 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 221988005045 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 221988005046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221988005047 catalytic residue [active] 221988005048 homoserine kinase; Provisional; Region: PRK01212 221988005049 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 221988005050 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 221988005051 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 221988005052 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 221988005053 putative catalytic residues [active] 221988005054 putative nucleotide binding site [chemical binding]; other site 221988005055 putative aspartate binding site [chemical binding]; other site 221988005056 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 221988005057 dimer interface [polypeptide binding]; other site 221988005058 putative threonine allosteric regulatory site; other site 221988005059 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 221988005060 putative threonine allosteric regulatory site; other site 221988005061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005062 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 221988005063 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 221988005064 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 221988005065 E-class dimer interface [polypeptide binding]; other site 221988005066 P-class dimer interface [polypeptide binding]; other site 221988005067 active site 221988005068 Cu2+ binding site [ion binding]; other site 221988005069 Zn2+ binding site [ion binding]; other site 221988005070 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 221988005071 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221988005072 catalytic residue [active] 221988005073 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 221988005074 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 221988005075 hinge; other site 221988005076 active site 221988005077 BolA-like protein; Region: BolA; cl00386 221988005078 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 221988005079 anti sigma factor interaction site; other site 221988005080 regulatory phosphorylation site [posttranslational modification]; other site 221988005081 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 221988005082 mce related protein; Region: MCE; pfam02470 221988005083 Permease; Region: Permease; cl00510 221988005084 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 221988005085 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 221988005086 Walker A/P-loop; other site 221988005087 ATP binding site [chemical binding]; other site 221988005088 Q-loop/lid; other site 221988005089 ABC transporter signature motif; other site 221988005090 Walker B; other site 221988005091 D-loop; other site 221988005092 H-loop/switch region; other site 221988005093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 221988005094 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 221988005095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 221988005096 OstA-like protein; Region: OstA; cl00844 221988005097 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 221988005098 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 221988005099 Walker A/P-loop; other site 221988005100 ATP binding site [chemical binding]; other site 221988005101 Q-loop/lid; other site 221988005102 ABC transporter signature motif; other site 221988005103 Walker B; other site 221988005104 D-loop; other site 221988005105 H-loop/switch region; other site 221988005106 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 221988005107 active site 221988005108 phosphorylation site [posttranslational modification] 221988005109 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 221988005110 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 221988005111 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 221988005112 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 221988005113 catalytic loop [active] 221988005114 iron binding site [ion binding]; other site 221988005115 chaperone protein HscA; Provisional; Region: hscA; PRK05183 221988005116 co-chaperone HscB; Provisional; Region: hscB; PRK01773 221988005117 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; cl02542 221988005118 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 221988005119 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 221988005120 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 221988005121 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 221988005122 trimerization site [polypeptide binding]; other site 221988005123 active site 221988005124 Cupin domain; Region: Cupin_2; cl09118 221988005125 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 221988005126 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 221988005127 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221988005128 catalytic residue [active] 221988005129 Helix-turn-helix domains; Region: HTH; cl00088 221988005130 Rrf2 family protein; Region: rrf2_super; TIGR00738 221988005131 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 221988005132 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 221988005133 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 221988005134 active site 221988005135 dimerization interface [polypeptide binding]; other site 221988005136 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 221988005137 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 221988005138 dimer interface [polypeptide binding]; other site 221988005139 phosphorylation site [posttranslational modification] 221988005140 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 221988005141 ATP binding site [chemical binding]; other site 221988005142 Mg2+ binding site [ion binding]; other site 221988005143 G-X-G motif; other site 221988005144 Response regulator receiver domain; Region: Response_reg; pfam00072 221988005145 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 221988005146 active site 221988005147 phosphorylation site [posttranslational modification] 221988005148 intermolecular recognition site; other site 221988005149 dimerization interface [polypeptide binding]; other site 221988005150 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; cl00086 221988005151 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 221988005152 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 221988005153 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 221988005154 generic binding surface II; other site 221988005155 ssDNA binding site; other site 221988005156 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 221988005157 ATP binding site [chemical binding]; other site 221988005158 putative Mg++ binding site [ion binding]; other site 221988005159 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 221988005160 nucleotide binding region [chemical binding]; other site 221988005161 ATP-binding site [chemical binding]; other site 221988005162 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 221988005163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 221988005164 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 221988005165 synthetase active site [active] 221988005166 NTP binding site [chemical binding]; other site 221988005167 metal binding site [ion binding]; metal-binding site 221988005168 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 221988005169 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 221988005170 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 221988005171 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 221988005172 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 221988005173 catalytic site [active] 221988005174 G-X2-G-X-G-K; other site 221988005175 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 221988005176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005177 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 221988005178 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 221988005179 Sodium:solute symporter family; Region: SSF; cl00456 221988005180 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 221988005181 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 221988005182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005183 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 221988005184 L-serine binding site [chemical binding]; other site 221988005185 ACT domain interface; other site 221988005186 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 221988005187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 221988005188 active site 221988005189 dimer interface [polypeptide binding]; other site 221988005190 HemN family oxidoreductase; Provisional; Region: PRK05660 221988005191 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 221988005192 FeS/SAM binding site; other site 221988005193 HemN C-terminal domain; Region: HemN_C; pfam06969 221988005194 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 221988005195 active site 221988005196 dimerization interface [polypeptide binding]; other site 221988005197 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 221988005198 LytB protein; Region: LYTB; cl00507 221988005199 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 221988005200 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 221988005201 lipoprotein signal peptidase; Provisional; Region: PRK14787 221988005202 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 221988005203 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 221988005204 active site 221988005205 HIGH motif; other site 221988005206 nucleotide binding site [chemical binding]; other site 221988005207 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; cl09108 221988005208 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 221988005209 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 221988005210 active site 221988005211 KMSKS motif; other site 221988005212 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 221988005213 tRNA binding surface [nucleotide binding]; other site 221988005214 anticodon binding site; other site 221988005215 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 221988005216 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 221988005217 active site 221988005218 Riboflavin kinase; Region: Flavokinase; cl03312 221988005219 EamA-like transporter family; Region: EamA; cl01037 221988005220 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 221988005221 EamA-like transporter family; Region: EamA; cl01037 221988005222 EamA-like transporter family; Region: EamA; cl01037 221988005223 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 221988005224 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 221988005225 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 221988005226 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 221988005227 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 221988005228 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 221988005229 motif II; other site 221988005230 Protein of unknown function (DUF520); Region: DUF520; cl00723 221988005231 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 221988005232 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 221988005233 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 221988005234 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 221988005235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221988005236 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 221988005237 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 221988005238 DNA binding residues [nucleotide binding] 221988005239 DNA primase; Validated; Region: dnaG; PRK05667 221988005240 CHC2 zinc finger; Region: zf-CHC2; cl15369 221988005241 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 221988005242 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 221988005243 active site 221988005244 metal binding site [ion binding]; metal-binding site 221988005245 interdomain interaction site; other site 221988005246 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 221988005247 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 221988005248 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 221988005249 UGMP family protein; Validated; Region: PRK09604 221988005250 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 221988005251 thymidine kinase; Provisional; Region: PRK04296 221988005252 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005253 ATP binding site [chemical binding]; other site 221988005254 Walker A motif; other site 221988005255 Walker B motif; other site 221988005256 Entericidin EcnA/B family; Region: Entericidin; cl02322 221988005257 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 221988005258 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 221988005259 nucleotide binding pocket [chemical binding]; other site 221988005260 K-X-D-G motif; other site 221988005261 catalytic site [active] 221988005262 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 221988005263 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 221988005264 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 221988005265 Dimer interface [polypeptide binding]; other site 221988005266 BRCT sequence motif; other site 221988005267 cell division protein ZipA; Provisional; Region: PRK01741 221988005268 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; cl12038 221988005269 FtsZ protein binding site [polypeptide binding]; other site 221988005270 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 221988005271 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 221988005272 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 221988005273 dimer interface [polypeptide binding]; other site 221988005274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988005275 catalytic residue [active] 221988005276 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 221988005277 TadE-like protein; Region: TadE; cl10688 221988005278 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 221988005279 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 221988005280 TPR motif; other site 221988005281 binding surface 221988005282 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 221988005283 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 221988005284 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 221988005285 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 221988005286 ATP binding site [chemical binding]; other site 221988005287 Walker A motif; other site 221988005288 hexamer interface [polypeptide binding]; other site 221988005289 Walker B motif; other site 221988005290 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 221988005291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005292 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 221988005293 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 221988005294 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 221988005295 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 221988005296 Flp/Fap pilin component; Region: Flp_Fap; cl01585 221988005297 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 221988005298 Clp amino terminal domain; Region: Clp_N; pfam02861 221988005299 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 221988005300 Walker A motif; other site 221988005301 ATP binding site [chemical binding]; other site 221988005302 Walker B motif; other site 221988005303 arginine finger; other site 221988005304 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 221988005305 Walker A motif; other site 221988005306 ATP binding site [chemical binding]; other site 221988005307 Walker B motif; other site 221988005308 arginine finger; other site 221988005309 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 221988005310 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 221988005311 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 221988005312 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 221988005313 GAF domain; Region: GAF; cl15785 221988005314 Sodium:solute symporter family; Region: SSF; cl00456 221988005315 putative transporter; Provisional; Region: PRK10484 221988005316 Protein of unknown function (DUF997); Region: DUF997; cl01614 221988005317 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 221988005318 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221988005319 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988005320 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 221988005321 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 221988005322 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 221988005323 carboxyltransferase (CT) interaction site; other site 221988005324 biotinylation site [posttranslational modification]; other site 221988005325 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 221988005326 active site 221988005327 trimer interface [polypeptide binding]; other site 221988005328 dimer interface [polypeptide binding]; other site 221988005329 O-succinylbenzoate synthase; Provisional; Region: PRK05105 221988005330 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 221988005331 active site 221988005332 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 221988005333 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 221988005334 substrate binding site [chemical binding]; other site 221988005335 oxyanion hole (OAH) forming residues; other site 221988005336 trimer interface [polypeptide binding]; other site 221988005337 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 221988005338 Protein of unknown function (DUF726); Region: DUF726; pfam05277 221988005339 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 221988005340 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 221988005341 dimer interface [polypeptide binding]; other site 221988005342 tetramer interface [polypeptide binding]; other site 221988005343 PYR/PP interface [polypeptide binding]; other site 221988005344 TPP binding site [chemical binding]; other site 221988005345 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 221988005346 TPP-binding site; other site 221988005347 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 221988005348 chorismate binding enzyme; Region: Chorismate_bind; cl10555 221988005349 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 221988005350 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 221988005351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988005352 homodimer interface [polypeptide binding]; other site 221988005353 catalytic residue [active] 221988005354 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 221988005355 MFS_1 like family; Region: MFS_1_like; pfam12832 221988005356 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 221988005357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005358 Putative exonuclease, RdgC; Region: RdgC; cl01122 221988005359 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 221988005360 putative alcohol dehydrogenase; Provisional; Region: PRK09860 221988005361 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 221988005362 dimer interface [polypeptide binding]; other site 221988005363 active site 221988005364 metal binding site [ion binding]; metal-binding site 221988005365 Helix-turn-helix domains; Region: HTH; cl00088 221988005366 putative transposase OrfB; Reviewed; Region: PHA02517 221988005367 HTH-like domain; Region: HTH_21; pfam13276 221988005368 Integrase core domain; Region: rve; cl01316 221988005369 Integrase core domain; Region: rve_3; cl15866 221988005370 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 221988005371 active site 221988005372 zinc binding site [ion binding]; other site 221988005373 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 221988005374 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 221988005375 dimerization interface [polypeptide binding]; other site 221988005376 ATP binding site [chemical binding]; other site 221988005377 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 221988005378 dimerization interface [polypeptide binding]; other site 221988005379 ATP binding site [chemical binding]; other site 221988005380 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 221988005381 putative active site [active] 221988005382 catalytic triad [active] 221988005383 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 221988005384 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 221988005385 substrate binding pocket [chemical binding]; other site 221988005386 membrane-bound complex binding site; other site 221988005387 hinge residues; other site 221988005388 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 catalyze...; Region: LT_GEWL; cd00254 221988005389 N-acetyl-D-glucosamine binding site [chemical binding]; other site 221988005390 catalytic residue [active] 221988005391 HI0933-like protein; Region: HI0933_like; pfam03486 221988005392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005394 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 221988005395 Cytochrome C biogenesis protein; Region: CcmH; cl01179 221988005396 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 221988005397 catalytic residues [active] 221988005398 central insert; other site 221988005399 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 221988005400 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 221988005401 Polysulphide reductase, NrfD; Region: NrfD; cl01295 221988005402 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 221988005403 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 221988005404 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 221988005405 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 221988005406 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 221988005407 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 221988005408 RNA binding surface [nucleotide binding]; other site 221988005409 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 221988005410 active site 221988005411 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 221988005412 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 221988005413 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 221988005414 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 221988005415 homooctamer interface [polypeptide binding]; other site 221988005416 active site 221988005417 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 221988005418 EamA-like transporter family; Region: EamA; cl01037 221988005419 EamA-like transporter family; Region: EamA; cl01037 221988005420 lipoyl synthase; Provisional; Region: PRK05481 221988005421 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 221988005422 FeS/SAM binding site; other site 221988005423 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 221988005424 Protein of unknown function (DUF493); Region: DUF493; cl01102 221988005425 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 221988005426 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988005427 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 221988005428 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 221988005429 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 221988005430 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 221988005431 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 221988005432 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988005433 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 221988005434 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 221988005435 Oligomerisation domain; Region: Oligomerisation; cl00519 221988005436 cytidine deaminase; Provisional; Region: PRK09027 221988005437 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 221988005438 active site 221988005439 catalytic motif [active] 221988005440 Zn binding site [ion binding]; other site 221988005441 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 221988005442 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 221988005443 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 221988005444 ATP binding site [chemical binding]; other site 221988005445 Mg++ binding site [ion binding]; other site 221988005446 motif III; other site 221988005447 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 221988005448 nucleotide binding region [chemical binding]; other site 221988005449 ATP-binding site [chemical binding]; other site 221988005450 transcription termination factor Rho; Provisional; Region: rho; PRK09376 221988005451 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 221988005452 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 221988005453 RNA binding site [nucleotide binding]; other site 221988005454 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 221988005455 multimer interface [polypeptide binding]; other site 221988005456 Walker A motif; other site 221988005457 ATP binding site [chemical binding]; other site 221988005458 Walker B motif; other site 221988005459 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 221988005460 UbiA prenyltransferase family; Region: UbiA; cl00337 221988005461 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 221988005462 homodimer interaction site [polypeptide binding]; other site 221988005463 cofactor binding site; other site 221988005464 periplasmic folding chaperone; Provisional; Region: PRK10788 221988005465 SurA N-terminal domain; Region: SurA_N_3; cl07813 221988005466 PPIC-type PPIASE domain; Region: Rotamase; cl08278 221988005467 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 221988005468 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 221988005469 Walker A motif; other site 221988005470 ATP binding site [chemical binding]; other site 221988005471 Walker B motif; other site 221988005472 arginine finger; other site 221988005473 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 221988005474 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 221988005475 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 221988005476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005477 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 221988005478 Walker A motif; other site 221988005479 ATP binding site [chemical binding]; other site 221988005480 Walker B motif; other site 221988005481 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 221988005482 Clp protease; Region: CLP_protease; pfam00574 221988005483 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 221988005484 oligomer interface [polypeptide binding]; other site 221988005485 active site residues [active] 221988005486 trigger factor; Provisional; Region: tig; PRK01490 221988005487 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 221988005488 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 221988005489 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 221988005490 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 221988005491 putative peptidoglycan binding site; other site 221988005492 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 221988005493 NADP binding site [chemical binding]; other site 221988005494 homodimer interface [polypeptide binding]; other site 221988005495 substrate binding site [chemical binding]; other site 221988005496 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 221988005497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005498 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 221988005499 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 221988005500 Ligand Binding Site [chemical binding]; other site 221988005501 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 221988005502 active site 221988005503 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 221988005504 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 221988005505 FeS/SAM binding site; other site 221988005506 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 221988005507 folate binding site [chemical binding]; other site 221988005508 NADP+ binding site [chemical binding]; other site 221988005509 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 221988005510 Uncharacterized conserved protein [Function unknown]; Region: COG2966 221988005511 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 221988005512 gamma-glutamyl kinase; Provisional; Region: PRK05429 221988005513 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 221988005514 nucleotide binding site [chemical binding]; other site 221988005515 homotetrameric interface [polypeptide binding]; other site 221988005516 putative phosphate binding site [ion binding]; other site 221988005517 putative allosteric binding site; other site 221988005518 PUA domain; Region: PUA; cl00607 221988005519 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 221988005520 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 221988005521 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 221988005522 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 221988005523 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 221988005524 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 221988005525 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 221988005526 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 221988005527 dimer interface [polypeptide binding]; other site 221988005528 active site 221988005529 CoA binding pocket [chemical binding]; other site 221988005530 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 221988005531 active site 221988005532 Acyl transferase domain; Region: Acyl_transf_1; cl08282 221988005533 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 221988005534 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 221988005535 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 221988005536 NAD(P) binding site [chemical binding]; other site 221988005537 homotetramer interface [polypeptide binding]; other site 221988005538 homodimer interface [polypeptide binding]; other site 221988005539 active site 221988005540 Phosphopantetheine attachment site; Region: PP-binding; cl09936 221988005541 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 221988005542 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005543 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 221988005544 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 221988005545 uracil-xanthine permease; Region: ncs2; TIGR00801 221988005546 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988005547 active site 221988005548 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 221988005549 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 221988005550 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 221988005551 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 221988005552 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 221988005553 substrate binding site [chemical binding]; other site 221988005554 glutamase interaction surface [polypeptide binding]; other site 221988005555 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 221988005556 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 221988005557 catalytic residues [active] 221988005558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 221988005559 MOSC domain; Region: MOSC; pfam03473 221988005560 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 221988005561 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 221988005562 putative active site [active] 221988005563 oxyanion strand; other site 221988005564 catalytic triad [active] 221988005565 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 221988005566 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 221988005567 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 221988005568 homodimer interface [polypeptide binding]; other site 221988005569 NAD binding pocket [chemical binding]; other site 221988005570 ATP binding pocket [chemical binding]; other site 221988005571 Mg binding site [ion binding]; other site 221988005572 active-site loop [active] 221988005573 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 221988005574 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 221988005575 active site 221988005576 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 221988005577 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 221988005578 active site 221988005579 motif I; other site 221988005580 motif II; other site 221988005581 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 221988005582 putative active site pocket [active] 221988005583 4-fold oligomerization interface [polypeptide binding]; other site 221988005584 metal binding residues [ion binding]; metal-binding site 221988005585 3-fold/trimer interface [polypeptide binding]; other site 221988005586 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 221988005587 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 221988005588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988005589 homodimer interface [polypeptide binding]; other site 221988005590 catalytic residue [active] 221988005591 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 221988005592 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 221988005593 NAD binding site [chemical binding]; other site 221988005594 dimerization interface [polypeptide binding]; other site 221988005595 product binding site; other site 221988005596 substrate binding site [chemical binding]; other site 221988005597 zinc binding site [ion binding]; other site 221988005598 catalytic residues [active] 221988005599 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 221988005600 ATP phosphoribosyltransferase; Region: HisG; cl15266 221988005601 HisG, C-terminal domain; Region: HisG_C; cl06867 221988005602 magnesium protoporphyrin IX methyltransferase; Region: PLN02585 221988005603 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 221988005604 S-adenosylmethionine binding site [chemical binding]; other site 221988005605 aromatic amino acid transport protein; Region: araaP; TIGR00837 221988005606 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 221988005607 Predicted membrane protein [Function unknown]; Region: COG2364 221988005608 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 221988005609 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 221988005610 Nucleoside recognition; Region: Gate; cl00486 221988005611 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 221988005612 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 221988005613 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 221988005614 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 221988005615 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 221988005616 putative metal binding site [ion binding]; other site 221988005617 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 221988005618 HSP70 interaction site [polypeptide binding]; other site 221988005619 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 221988005620 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 221988005621 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 221988005622 FMN binding site [chemical binding]; other site 221988005623 active site 221988005624 catalytic residues [active] 221988005625 substrate binding site [chemical binding]; other site 221988005626 dUMP phosphatase; Provisional; Region: PRK09449 221988005627 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 221988005628 motif II; other site 221988005629 hypothetical protein; Validated; Region: PRK06886 221988005630 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 221988005631 active site 221988005632 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 221988005633 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 221988005634 Sulfatase; Region: Sulfatase; cl10460 221988005635 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 221988005636 Nucleoid-associated protein [General function prediction only]; Region: COG3081 221988005637 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 221988005638 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 221988005639 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 221988005640 active site 221988005641 phosphorylation site [posttranslational modification] 221988005642 intermolecular recognition site; other site 221988005643 dimerization interface [polypeptide binding]; other site 221988005644 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 221988005645 DNA binding site [nucleotide binding] 221988005646 two-component sensor protein; Provisional; Region: cpxA; PRK09470 221988005647 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; cl01054 221988005648 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 221988005649 dimer interface [polypeptide binding]; other site 221988005650 phosphorylation site [posttranslational modification] 221988005651 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 221988005652 ATP binding site [chemical binding]; other site 221988005653 Mg2+ binding site [ion binding]; other site 221988005654 G-X-G motif; other site 221988005655 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 221988005656 transmembrane helices; other site 221988005657 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 221988005658 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 221988005659 FeS/SAM binding site; other site 221988005660 TPR repeat; Region: TPR_11; pfam13414 221988005661 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 221988005662 binding surface 221988005663 TPR motif; other site 221988005664 Tetratricopeptide repeat; Region: TPR_12; pfam13424 221988005665 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 221988005666 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 221988005667 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 221988005668 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 221988005669 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 221988005670 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 221988005671 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 221988005672 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 ATP-dependent...; Region: HisRS-like_core; cd00773 221988005673 dimer interface [polypeptide binding]; other site 221988005674 motif 1; other site 221988005675 active site 221988005676 motif 2; other site 221988005677 motif 3; other site 221988005678 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 221988005679 anticodon binding site; other site 221988005680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 221988005681 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 221988005682 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 221988005683 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 221988005684 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 221988005685 trimer interface [polypeptide binding]; other site 221988005686 active site 221988005687 UDP-GlcNAc binding site [chemical binding]; other site 221988005688 lipid binding site [chemical binding]; lipid-binding site 221988005689 periplasmic chaperone; Provisional; Region: PRK10780 221988005690 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 221988005691 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 221988005692 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988005693 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988005694 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988005695 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 221988005696 Surface antigen; Region: Bac_surface_Ag; cl03097 221988005697 zinc metallopeptidase RseP; Provisional; Region: PRK10779 221988005698 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 221988005699 active site 221988005700 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 221988005701 protein binding site [polypeptide binding]; other site 221988005702 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 221988005703 protein binding site [polypeptide binding]; other site 221988005704 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 221988005705 putative substrate binding region [chemical binding]; other site 221988005706 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 221988005707 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 221988005708 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 221988005709 catalytic residue [active] 221988005710 putative FPP diphosphate binding site; other site 221988005711 putative FPP binding hydrophobic cleft; other site 221988005712 dimer interface [polypeptide binding]; other site 221988005713 putative IPP diphosphate binding site; other site 221988005714 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 221988005715 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 221988005716 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 221988005717 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 221988005718 ribosome recycling factor; Reviewed; Region: frr; PRK00083 221988005719 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 round of...; Region: RRF; cd00520 221988005720 hinge region; other site 221988005721 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 221988005722 putative nucleotide binding site [chemical binding]; other site 221988005723 uridine monophosphate binding site [chemical binding]; other site 221988005724 homohexameric interface [polypeptide binding]; other site 221988005725 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 221988005726 Sulfatase; Region: Sulfatase; cl10460 221988005727 elongation factor Ts; Provisional; Region: tsf; PRK09377 221988005728 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 221988005729 Elongation factor TS; Region: EF_TS; pfam00889 221988005730 Elongation factor TS; Region: EF_TS; pfam00889 221988005731 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 221988005732 rRNA interaction site [nucleotide binding]; other site 221988005733 S8 interaction site; other site 221988005734 putative laminin-1 binding site; other site 221988005735 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 221988005736 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 221988005737 ligand binding site [chemical binding]; other site 221988005738 flexible hinge region; other site 221988005739 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 221988005740 putative switch regulator; other site 221988005741 non-specific DNA interactions [nucleotide binding]; other site 221988005742 DNA binding site [nucleotide binding] 221988005743 sequence specific DNA binding site [nucleotide binding]; other site 221988005744 putative cAMP binding site [chemical binding]; other site 221988005745 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 221988005746 division inhibitor protein; Provisional; Region: slmA; PRK09480 221988005747 Helix-turn-helix domains; Region: HTH; cl00088 221988005748 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 221988005749 trimer interface [polypeptide binding]; other site 221988005750 active site 221988005751 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 221988005752 Flavoprotein; Region: Flavoprotein; cl08021 221988005753 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 221988005754 hypothetical protein; Reviewed; Region: PRK00024 221988005755 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 221988005756 MPN+ (JAMM) motif; other site 221988005757 Zinc-binding site [ion binding]; other site 221988005758 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 221988005759 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 221988005760 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 221988005761 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 221988005762 DNA binding site [nucleotide binding] 221988005763 catalytic residue [active] 221988005764 H2TH interface [polypeptide binding]; other site 221988005765 putative catalytic residues [active] 221988005766 turnover-facilitating residue; other site 221988005767 intercalation triad [nucleotide binding]; other site 221988005768 8OG recognition residue [nucleotide binding]; other site 221988005769 putative reading head residues; other site 221988005770 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 221988005771 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 221988005772 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 221988005773 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 221988005774 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 221988005775 Substrate binding site; other site 221988005776 Mg++ binding site; other site 221988005777 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 221988005778 active site 221988005779 substrate binding site [chemical binding]; other site 221988005780 CoA binding site [chemical binding]; other site 221988005781 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 221988005782 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 221988005783 ATP binding site [chemical binding]; other site 221988005784 Mg++ binding site [ion binding]; other site 221988005785 motif III; other site 221988005786 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 221988005787 nucleotide binding region [chemical binding]; other site 221988005788 ATP-binding site [chemical binding]; other site 221988005789 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 221988005790 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 221988005791 active site 221988005792 (T/H)XGH motif; other site 221988005793 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 221988005794 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 221988005795 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 221988005796 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 221988005797 dimer interface [polypeptide binding]; other site 221988005798 motif 1; other site 221988005799 active site 221988005800 motif 2; other site 221988005801 motif 3; other site 221988005802 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 221988005803 putative active site [active] 221988005804 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 221988005805 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 221988005806 Predicted membrane protein [Function unknown]; Region: COG3671 221988005807 Domain of unknown function DUF20; Region: UPF0118; pfam01594 221988005808 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 221988005809 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 221988005810 ArsC family; Region: ArsC; pfam03960 221988005811 catalytic residues [active] 221988005812 Domain of unknown function; Region: DUF331; cl01149 221988005813 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 221988005814 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 221988005815 putative active site [active] 221988005816 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 221988005817 ATP binding site [chemical binding]; other site 221988005818 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 221988005819 amphipathic channel; other site 221988005820 Asn-Pro-Ala signature motifs; other site 221988005821 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' sequence. MetJ...; Region: Met_repressor_MetJ; cd00490 221988005822 dimerization interface [polypeptide binding]; other site 221988005823 DNA binding site [nucleotide binding] 221988005824 corepressor binding sites; other site 221988005825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005826 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 221988005827 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 221988005828 active site 221988005829 dimer interface [polypeptide binding]; other site 221988005830 metal binding site [ion binding]; metal-binding site 221988005831 shikimate kinase; Reviewed; Region: aroK; PRK00131 221988005832 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 221988005833 ADP binding site [chemical binding]; other site 221988005834 magnesium binding site [ion binding]; other site 221988005835 putative shikimate binding site; other site 221988005836 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 221988005837 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 221988005838 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 221988005839 general secretion pathway protein L; Region: typeII_sec_gspL; TIGR01709 221988005840 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 221988005841 Transglycosylase; Region: Transgly; cl07896 221988005842 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 221988005843 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 221988005844 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; cl15754 221988005845 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 221988005846 GntP family permease; Region: GntP_permease; pfam02447 221988005847 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 221988005848 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; cl00214 221988005849 intersubunit interface [polypeptide binding]; other site 221988005850 active site 221988005851 Zn2+ binding site [ion binding]; other site 221988005852 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 221988005853 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 221988005854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005855 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 221988005856 Helix-turn-helix domains; Region: HTH; cl00088 221988005857 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988005858 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 221988005859 Aspartase; Region: Aspartase; cd01357 221988005860 active sites [active] 221988005861 tetramer interface [polypeptide binding]; other site 221988005862 glutathione reductase; Validated; Region: PRK06116 221988005863 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 221988005864 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 221988005865 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 221988005866 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 221988005867 putative active site [active] 221988005868 glycerol kinase; Provisional; Region: glpK; PRK00047 221988005869 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 221988005870 N- and C-terminal domain interface [polypeptide binding]; other site 221988005871 active site 221988005872 MgATP binding site [chemical binding]; other site 221988005873 catalytic site [active] 221988005874 metal binding site [ion binding]; metal-binding site 221988005875 glycerol binding site [chemical binding]; other site 221988005876 homotetramer interface [polypeptide binding]; other site 221988005877 homodimer interface [polypeptide binding]; other site 221988005878 FBP binding site [chemical binding]; other site 221988005879 protein IIAGlc interface [polypeptide binding]; other site 221988005880 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 221988005881 amphipathic channel; other site 221988005882 Asn-Pro-Ala signature motifs; other site 221988005883 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 221988005884 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 221988005885 putative substrate translocation pore; other site 221988005886 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 221988005887 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 221988005888 active site 221988005889 catalytic site [active] 221988005890 metal binding site [ion binding]; metal-binding site 221988005891 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 221988005892 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 221988005893 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 221988005894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988005895 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 221988005896 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 221988005897 Cysteine-rich domain; Region: CCG; pfam02754 221988005898 Cysteine-rich domain; Region: CCG; pfam02754 221988005899 Predicted GTPase [General function prediction only]; Region: COG0218 221988005900 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 221988005901 G1 box; other site 221988005902 GTP/Mg2+ binding site [chemical binding]; other site 221988005903 Switch I region; other site 221988005904 G2 box; other site 221988005905 G3 box; other site 221988005906 Switch II region; other site 221988005907 G4 box; other site 221988005908 G5 box; other site 221988005909 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 221988005910 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 221988005911 Walker A motif; other site 221988005912 ATP binding site [chemical binding]; other site 221988005913 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 221988005914 TfoX N-terminal domain; Region: TfoX_N; cl01167 221988005915 OsmC-like protein; Region: OsmC; cl00767 221988005916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988005917 Helix-turn-helix domains; Region: HTH; cl00088 221988005918 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 221988005919 dimerization interface [polypeptide binding]; other site 221988005920 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 221988005921 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 221988005922 catalytic residues [active] 221988005923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988005924 Helix-turn-helix domains; Region: HTH; cl00088 221988005925 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 221988005926 dimerization interface [polypeptide binding]; other site 221988005927 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 221988005928 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 221988005929 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 221988005930 putative active site [active] 221988005931 putative FMN binding site [chemical binding]; other site 221988005932 putative substrate binding site [chemical binding]; other site 221988005933 putative catalytic residue [active] 221988005934 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988005935 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; cl09108 221988005936 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 221988005937 TniQ; Region: TniQ; pfam06527 221988005938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005939 AAA domain; Region: AAA_22; pfam13401 221988005940 Helix-turn-helix domains; Region: HTH; cl00088 221988005941 Winged helix-turn helix; Region: HTH_29; pfam13551 221988005942 Integrase core domain; Region: rve; cl01316 221988005943 Integrase core domain; Region: rve_3; cl15866 221988005944 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 221988005945 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 221988005946 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 221988005947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988005948 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 221988005949 hypothetical membrane protein, TIGR01666; Region: YCCS 221988005950 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 221988005951 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 221988005952 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 221988005953 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 221988005954 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 221988005955 alphaNTD homodimer interface [polypeptide binding]; other site 221988005956 alphaNTD - beta interaction site [polypeptide binding]; other site 221988005957 alphaNTD - beta' interaction site [polypeptide binding]; other site 221988005958 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 221988005959 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 221988005960 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 221988005961 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 221988005962 RNA binding surface [nucleotide binding]; other site 221988005963 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 221988005964 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 221988005965 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 221988005966 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 221988005967 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 221988005968 SecY translocase; Region: SecY; pfam00344 221988005969 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 221988005970 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 221988005971 23S rRNA binding site [nucleotide binding]; other site 221988005972 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 221988005973 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 221988005974 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 221988005975 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 221988005976 5S rRNA interface [nucleotide binding]; other site 221988005977 L27 interface [polypeptide binding]; other site 221988005978 23S rRNA interface [nucleotide binding]; other site 221988005979 L5 interface [polypeptide binding]; other site 221988005980 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 221988005981 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 221988005982 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 221988005983 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 221988005984 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 221988005985 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 221988005986 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 221988005987 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 221988005988 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 221988005989 KOW motif; Region: KOW; cl00354 221988005990 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 221988005991 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 221988005992 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 221988005993 23S rRNA interface [nucleotide binding]; other site 221988005994 putative translocon interaction site; other site 221988005995 signal recognition particle (SRP54) interaction site; other site 221988005996 L23 interface [polypeptide binding]; other site 221988005997 trigger factor interaction site; other site 221988005998 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 221988005999 23S rRNA interface [nucleotide binding]; other site 221988006000 5S rRNA interface [nucleotide binding]; other site 221988006001 putative antibiotic binding site [chemical binding]; other site 221988006002 L25 interface [polypeptide binding]; other site 221988006003 L27 interface [polypeptide binding]; other site 221988006004 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 221988006005 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 221988006006 G-X-X-G motif; other site 221988006007 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 221988006008 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 221988006009 protein-rRNA interface [nucleotide binding]; other site 221988006010 putative translocon binding site; other site 221988006011 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 221988006012 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 221988006013 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 221988006014 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 221988006015 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 221988006016 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 221988006017 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 221988006018 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 221988006019 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 221988006020 active site 221988006021 homodimer interface [polypeptide binding]; other site 221988006022 homotetramer interface [polypeptide binding]; other site 221988006023 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 221988006024 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 221988006025 putative ion selectivity filter; other site 221988006026 putative pore gating glutamate residue; other site 221988006027 putative H+/Cl- coupling transport residue; other site 221988006028 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 221988006029 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 221988006030 FMN binding site [chemical binding]; other site 221988006031 active site 221988006032 catalytic residues [active] 221988006033 substrate binding site [chemical binding]; other site 221988006034 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 221988006035 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 221988006036 peptide binding site [polypeptide binding]; other site 221988006037 putative transporter; Provisional; Region: PRK10504 221988006038 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 221988006039 putative substrate translocation pore; other site 221988006040 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 221988006041 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 221988006042 Walker A motif; other site 221988006043 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 221988006044 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 221988006045 GTP binding site; other site 221988006046 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 221988006047 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 221988006048 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 221988006049 catalytic residues [active] 221988006050 hinge region; other site 221988006051 alpha helical domain; other site 221988006052 Protein of unknown function, DUF; Region: DUF413; cl10479 221988006053 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 221988006054 prolyl-tRNA synthetase; Provisional; Region: PRK09194 221988006055 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 formation of...; Region: ProRS_core_prok; cd00779 221988006056 dimer interface [polypeptide binding]; other site 221988006057 motif 1; other site 221988006058 active site 221988006059 motif 2; other site 221988006060 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 221988006061 putative deacylase active site [active] 221988006062 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 attaches...; Region: class_II_aaRS-like_core; cl00268 221988006063 active site 221988006064 motif 3; other site 221988006065 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 221988006066 anticodon binding site; other site 221988006067 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 221988006068 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 221988006069 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 221988006070 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 221988006071 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 221988006072 trimer interface; other site 221988006073 sugar binding site [chemical binding]; other site 221988006074 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 221988006075 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 221988006076 Walker A/P-loop; other site 221988006077 ATP binding site [chemical binding]; other site 221988006078 Q-loop/lid; other site 221988006079 ABC transporter signature motif; other site 221988006080 Walker B; other site 221988006081 D-loop; other site 221988006082 H-loop/switch region; other site 221988006083 TOBE domain; Region: TOBE_2; cl01440 221988006084 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 221988006085 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 221988006086 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 221988006087 dimer interface [polypeptide binding]; other site 221988006088 conserved gate region; other site 221988006089 putative PBP binding loops; other site 221988006090 ABC-ATPase subunit interface; other site 221988006091 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 221988006092 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 221988006093 dimer interface [polypeptide binding]; other site 221988006094 conserved gate region; other site 221988006095 putative PBP binding loops; other site 221988006096 ABC-ATPase subunit interface; other site 221988006097 alpha-amylase; Reviewed; Region: malS; PRK09505 221988006098 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 221988006099 active site 221988006100 catalytic site [active] 221988006101 transcriptional regulator MalT; Provisional; Region: PRK04841 221988006102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988006103 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 221988006104 DNA binding residues [nucleotide binding] 221988006105 dimerization interface [polypeptide binding]; other site 221988006106 maltodextrin phosphorylase; Provisional; Region: PRK14985 221988006107 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 221988006108 homodimer interface [polypeptide binding]; other site 221988006109 active site pocket [active] 221988006110 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 221988006111 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 221988006112 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 221988006113 active site 221988006114 catalytic tetrad [active] 221988006115 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 221988006116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006117 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 221988006118 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 221988006119 ATP binding site [chemical binding]; other site 221988006120 putative Mg++ binding site [ion binding]; other site 221988006121 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 221988006122 nucleotide binding region [chemical binding]; other site 221988006123 ATP-binding site [chemical binding]; other site 221988006124 RQC domain; Region: RQC; cl09632 221988006125 HRDC domain; Region: HRDC; cl02578 221988006126 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 in...; Region: Frataxin; cd00503 221988006127 putative iron binding site [ion binding]; other site 221988006128 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 221988006129 diaminopimelate decarboxylase; Region: lysA; TIGR01048 221988006130 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 221988006131 active site 221988006132 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 221988006133 substrate binding site [chemical binding]; other site 221988006134 catalytic residues [active] 221988006135 dimer interface [polypeptide binding]; other site 221988006136 glutathionine S-transferase; Provisional; Region: PRK10542 221988006137 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 221988006138 C-terminal domain interface [polypeptide binding]; other site 221988006139 GSH binding site (G-site) [chemical binding]; other site 221988006140 dimer interface [polypeptide binding]; other site 221988006141 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 221988006142 dimer interface [polypeptide binding]; other site 221988006143 N-terminal domain interface [polypeptide binding]; other site 221988006144 substrate binding pocket (H-site) [chemical binding]; other site 221988006145 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 221988006146 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 221988006147 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 221988006148 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 221988006149 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988006150 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221988006151 Helix-turn-helix domains; Region: HTH; cl00088 221988006152 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006153 Helix-turn-helix domains; Region: HTH; cl00088 221988006154 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 221988006155 dimerization interface [polypeptide binding]; other site 221988006156 putative effector binding pocket; other site 221988006157 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 221988006158 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 221988006159 active site 221988006160 catalytic tetrad [active] 221988006161 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988006162 Flavin Reductases; Region: FlaRed; cl00801 221988006163 Flavin Reductases; Region: FlaRed; cl00801 221988006164 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 221988006165 putative active site [active] 221988006166 putative FMN binding site [chemical binding]; other site 221988006167 putative substrate binding site [chemical binding]; other site 221988006168 putative catalytic residue [active] 221988006169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 221988006170 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 221988006171 putative C-terminal domain interface [polypeptide binding]; other site 221988006172 putative GSH binding site (G-site) [chemical binding]; other site 221988006173 putative dimer interface [polypeptide binding]; other site 221988006174 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 221988006175 N-terminal domain interface [polypeptide binding]; other site 221988006176 dimer interface [polypeptide binding]; other site 221988006177 OsmC-like protein; Region: OsmC; cl00767 221988006178 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 221988006179 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 221988006180 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; cl09155 221988006181 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 221988006182 dinuclear metal binding motif [ion binding]; other site 221988006183 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 221988006184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006185 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221988006186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006187 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 221988006188 Restriction endonuclease; Region: Mrr_cat; cl00516 221988006189 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 221988006190 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988006191 Protein of unknown function, DUF606; Region: DUF606; cl01273 221988006192 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 221988006193 dimer interface [polypeptide binding]; other site 221988006194 FMN binding site [chemical binding]; other site 221988006195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006196 Helix-turn-helix domains; Region: HTH; cl00088 221988006197 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 221988006198 putative effector binding pocket; other site 221988006199 dimerization interface [polypeptide binding]; other site 221988006200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988006201 active site 221988006202 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 221988006203 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 221988006204 metal binding site [ion binding]; metal-binding site 221988006205 dimer interface [polypeptide binding]; other site 221988006206 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 221988006207 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988006208 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; cl12031 221988006209 Putative esterase; Region: Esterase; pfam00756 221988006210 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; cl12031 221988006211 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 221988006212 Cyclophilin-like; Region: Cyclophil_like; cl00950 221988006213 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 221988006214 trimer interface [polypeptide binding]; other site 221988006215 active site 221988006216 substrate binding site [chemical binding]; other site 221988006217 CoA binding site [chemical binding]; other site 221988006218 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 221988006219 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006220 Helix-turn-helix domains; Region: HTH; cl00088 221988006221 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 221988006222 dimerization interface [polypeptide binding]; other site 221988006223 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 221988006224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006225 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221988006226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006227 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 221988006228 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 221988006229 NAD(P) binding site [chemical binding]; other site 221988006230 catalytic residues [active] 221988006231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006232 Helix-turn-helix domains; Region: HTH; cl00088 221988006233 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 221988006234 putative effector binding pocket; other site 221988006235 dimerization interface [polypeptide binding]; other site 221988006236 Cupin domain; Region: Cupin_2; cl09118 221988006237 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 221988006238 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 221988006239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006240 DoxX; Region: DoxX; cl00976 221988006241 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988006242 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 221988006243 YCII-related domain; Region: YCII; cl00999 221988006244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006245 Helix-turn-helix domains; Region: HTH; cl00088 221988006246 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 221988006247 putative effector binding pocket; other site 221988006248 dimerization interface [polypeptide binding]; other site 221988006249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006250 NAD(P) binding site [chemical binding]; other site 221988006251 active site 221988006252 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 221988006253 classical (c) SDRs; Region: SDR_c; cd05233 221988006254 NAD(P) binding site [chemical binding]; other site 221988006255 active site 221988006256 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 221988006257 Helix-turn-helix domains; Region: HTH; cl00088 221988006258 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 221988006259 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 221988006260 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 221988006261 putative FMN binding site [chemical binding]; other site 221988006262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006263 Helix-turn-helix domains; Region: HTH; cl00088 221988006264 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 221988006265 dimerization interface [polypeptide binding]; other site 221988006266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006267 Helix-turn-helix domains; Region: HTH; cl00088 221988006268 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 221988006269 putative effector binding pocket; other site 221988006270 putative dimerization interface [polypeptide binding]; other site 221988006271 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 221988006272 putative active site [active] 221988006273 putative FMN binding site [chemical binding]; other site 221988006274 putative substrate binding site [chemical binding]; other site 221988006275 putative catalytic residue [active] 221988006276 Protein of unknown function (DUF1749); Region: DUF1749; pfam08538 221988006277 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221988006278 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 221988006279 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 221988006280 catalytic residues [active] 221988006281 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; cl12031 221988006282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221988006283 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 221988006284 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221988006285 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 221988006286 Cupin domain; Region: Cupin_2; cl09118 221988006287 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988006288 Uncharacterized protein conserved in bacteria (DUF2255); Region: DUF2255; cl01788 221988006289 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; cl12031 221988006290 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 221988006291 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988006292 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 221988006293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006294 NAD(P) binding site [chemical binding]; other site 221988006295 active site 221988006296 HsdM N-terminal domain; Region: HsdM_N; pfam12161 221988006297 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 221988006298 Fic/DOC family; Region: Fic; cl00960 221988006299 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 221988006300 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 221988006301 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 221988006302 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 221988006303 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 221988006304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 221988006305 ATP binding site [chemical binding]; other site 221988006306 putative Mg++ binding site [ion binding]; other site 221988006307 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 221988006308 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; cl12031 221988006309 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221988006310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006311 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 221988006312 substrate binding site [chemical binding]; other site 221988006313 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 221988006314 short chain dehydrogenase; Provisional; Region: PRK06197 221988006315 putative NAD(P) binding site [chemical binding]; other site 221988006316 active site 221988006317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 221988006318 Helix-turn-helix domains; Region: HTH; cl00088 221988006319 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 221988006320 dimerization interface [polypeptide binding]; other site 221988006321 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 221988006322 putative metal binding site [ion binding]; other site 221988006323 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 221988006324 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 221988006325 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 221988006326 active site 221988006327 P-loop; other site 221988006328 phosphorylation site [posttranslational modification] 221988006329 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 221988006330 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 221988006331 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 221988006332 putative substrate binding site [chemical binding]; other site 221988006333 putative ATP binding site [chemical binding]; other site 221988006334 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 221988006335 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 221988006336 active site 221988006337 phosphorylation site [posttranslational modification] 221988006338 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 221988006339 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 221988006340 dimerization domain swap beta strand [polypeptide binding]; other site 221988006341 regulatory protein interface [polypeptide binding]; other site 221988006342 active site 221988006343 regulatory phosphorylation site [posttranslational modification]; other site 221988006344 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 221988006345 dimerization domain swap beta strand [polypeptide binding]; other site 221988006346 regulatory protein interface [polypeptide binding]; other site 221988006347 active site 221988006348 regulatory phosphorylation site [posttranslational modification]; other site 221988006349 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 221988006350 active site residue [active] 221988006351 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 221988006352 intramembrane serine protease GlpG; Provisional; Region: PRK10907 221988006353 Rhomboid family; Region: Rhomboid; cl11446 221988006354 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 221988006355 Helix-turn-helix domains; Region: HTH; cl00088 221988006356 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988006357 elongation factor Tu; Reviewed; Region: PRK00049 221988006358 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 221988006359 G1 box; other site 221988006360 GEF interaction site [polypeptide binding]; other site 221988006361 GTP/Mg2+ binding site [chemical binding]; other site 221988006362 Switch I region; other site 221988006363 G2 box; other site 221988006364 G3 box; other site 221988006365 Switch II region; other site 221988006366 G4 box; other site 221988006367 G5 box; other site 221988006368 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 221988006369 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 221988006370 Antibiotic Binding Site [chemical binding]; other site 221988006371 pantothenate kinase; Provisional; Region: PRK05439 221988006372 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 in...; Region: PanK; cd02025 221988006373 ATP-binding site [chemical binding]; other site 221988006374 CoA-binding site [chemical binding]; other site 221988006375 Mg2+-binding site [ion binding]; other site 221988006376 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 221988006377 homotrimer interaction site [polypeptide binding]; other site 221988006378 putative active site [active] 221988006379 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 221988006380 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 221988006381 putative catalytic cysteine [active] 221988006382 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 221988006383 putative active site [active] 221988006384 metal binding site [ion binding]; metal-binding site 221988006385 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 221988006386 active site 221988006387 nucleophile elbow; other site 221988006388 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 221988006389 substrate-cofactor binding pocket; other site 221988006390 homodimer interface [polypeptide binding]; other site 221988006391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988006392 catalytic residue [active] 221988006393 chorismate binding enzyme; Region: Chorismate_bind; cl10555 221988006394 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 221988006395 Glutamine amidotransferase class-I; Region: GATase; pfam00117 221988006396 glutamine binding [chemical binding]; other site 221988006397 catalytic triad [active] 221988006398 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 221988006399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006400 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; cl15357 221988006401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006402 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; cl15357 221988006403 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 221988006404 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 221988006405 RNase E inhibitor protein; Provisional; Region: PRK11191 221988006406 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 221988006407 Protein of unknown function (DUF541); Region: SIMPL; cl01077 221988006408 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 221988006409 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 221988006410 active site 221988006411 catalytic residues [active] 221988006412 metal binding site [ion binding]; metal-binding site 221988006413 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 221988006414 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 221988006415 putative active site [active] 221988006416 substrate binding site [chemical binding]; other site 221988006417 putative cosubstrate binding site; other site 221988006418 catalytic site [active] 221988006419 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 221988006420 substrate binding site [chemical binding]; other site 221988006421 16S rRNA methyltransferase B; Provisional; Region: PRK10901 221988006422 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 221988006423 putative RNA binding site [nucleotide binding]; other site 221988006424 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 221988006425 S-adenosylmethionine binding site [chemical binding]; other site 221988006426 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 221988006427 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 221988006428 active site 221988006429 dimer interface [polypeptide binding]; other site 221988006430 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 221988006431 active site 221988006432 trimer interface [polypeptide binding]; other site 221988006433 allosteric site; other site 221988006434 active site lid [active] 221988006435 hexamer (dimer of trimers) interface [polypeptide binding]; other site 221988006436 Domain of unknown function (DUF386); Region: DUF386; cl01047 221988006437 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 221988006438 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 221988006439 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 221988006440 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 221988006441 RNA binding site [nucleotide binding]; other site 221988006442 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 221988006443 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 221988006444 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 221988006445 Helix-turn-helix domains; Region: HTH; cl00088 221988006446 serine acetyltransferase; Provisional; Region: cysE; PRK11132 221988006447 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 221988006448 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 221988006449 trimer interface [polypeptide binding]; other site 221988006450 active site 221988006451 substrate binding site [chemical binding]; other site 221988006452 CoA binding site [chemical binding]; other site 221988006453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006454 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 221988006455 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 221988006456 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 221988006457 SecA binding site; other site 221988006458 Preprotein binding site; other site 221988006459 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 221988006460 active site residue [active] 221988006461 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 221988006462 threonine dehydratase; Reviewed; Region: PRK09224 221988006463 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 221988006464 tetramer interface [polypeptide binding]; other site 221988006465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 221988006466 catalytic residue [active] 221988006467 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 221988006468 putative Ile/Val binding site [chemical binding]; other site 221988006469 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 221988006470 putative Ile/Val binding site [chemical binding]; other site 221988006471 Dehydratase family; Region: ILVD_EDD; cl00340 221988006472 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 221988006473 dimer interface [polypeptide binding]; other site 221988006474 substrate binding site [chemical binding]; other site 221988006475 metal binding sites [ion binding]; metal-binding site 221988006476 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 221988006477 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 221988006478 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 221988006479 PYR/PP interface [polypeptide binding]; other site 221988006480 dimer interface [polypeptide binding]; other site 221988006481 TPP binding site [chemical binding]; other site 221988006482 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 221988006483 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 221988006484 TPP-binding site [chemical binding]; other site 221988006485 dimer interface [polypeptide binding]; other site 221988006486 putative hydrolase; Provisional; Region: PRK10976 221988006487 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 221988006488 active site 221988006489 motif I; other site 221988006490 motif II; other site 221988006491 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 221988006492 CrcB-like protein; Region: CRCB; cl09114 221988006493 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 221988006494 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 221988006495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 221988006496 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 221988006497 DNA binding residues [nucleotide binding] 221988006498 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 221988006499 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 221988006500 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 221988006501 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 221988006502 MucB/RseB family; Region: MucB_RseB; pfam03888 221988006503 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 221988006504 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 221988006505 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 221988006506 NifU-like domain; Region: NifU; cl00484 221988006507 DNA utilization protein GntX; Provisional; Region: PRK11595 221988006508 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 221988006509 active site 221988006510 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 221988006511 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221988006512 active site 221988006513 motif I; other site 221988006514 motif II; other site 221988006515 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988006516 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 221988006517 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221988006518 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988006519 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 221988006520 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 221988006521 ATP-grasp domain; Region: ATP-grasp_4; cl03087 221988006522 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 221988006523 IMP binding site; other site 221988006524 dimer interface [polypeptide binding]; other site 221988006525 interdomain contacts; other site 221988006526 partial ornithine binding site; other site 221988006527 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 221988006528 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 221988006529 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 221988006530 catalytic site [active] 221988006531 subunit interface [polypeptide binding]; other site 221988006532 VacJ like lipoprotein; Region: VacJ; cl01073 221988006533 YfbU domain; Region: YfbU; cl01137 221988006534 Tannase and feruloyl esterase; Region: Tannase; pfam07519 221988006535 RecX family; Region: RecX; cl00936 221988006536 recombinase A; Provisional; Region: recA; PRK09354 221988006537 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 221988006538 hexamer interface [polypeptide binding]; other site 221988006539 Walker A motif; other site 221988006540 ATP binding site [chemical binding]; other site 221988006541 Walker B motif; other site 221988006542 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 221988006543 MutS domain I; Region: MutS_I; pfam01624 221988006544 MutS domain II; Region: MutS_II; pfam05188 221988006545 MutS family domain IV; Region: MutS_IV; pfam05190 221988006546 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 221988006547 Walker A/P-loop; other site 221988006548 ATP binding site [chemical binding]; other site 221988006549 Q-loop/lid; other site 221988006550 ABC transporter signature motif; other site 221988006551 Walker B; other site 221988006552 D-loop; other site 221988006553 H-loop/switch region; other site 221988006554 Predicted membrane protein [Function unknown]; Region: COG4125 221988006555 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 221988006556 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 221988006557 Glycosyl transferase family 41; Region: Glyco_transf_41; pfam13844 221988006558 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 221988006559 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 221988006560 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 221988006561 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 221988006562 FeS/SAM binding site; other site 221988006563 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; cl00125 221988006564 active site residue [active] 221988006565 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 221988006566 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 221988006567 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 221988006568 Mg2+ binding site [ion binding]; other site 221988006569 G-X-G motif; other site 221988006570 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 221988006571 anchoring element; other site 221988006572 dimer interface [polypeptide binding]; other site 221988006573 ATP binding site [chemical binding]; other site 221988006574 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 221988006575 active site 221988006576 putative metal-binding site [ion binding]; other site 221988006577 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 221988006578 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 221988006579 LysE type translocator; Region: LysE; cl00565 221988006580 Protein of unknown function (DUF904); Region: DUF904; cl11531 221988006581 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 221988006582 putative active site [active] 221988006583 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 221988006584 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; cl12031 221988006585 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 221988006586 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 221988006587 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 221988006588 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 221988006589 putative active site [active] 221988006590 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 221988006591 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 221988006592 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 221988006593 putative active site [active] 221988006594 Protein of unknown function (DUF406); Region: DUF406; cl11449 221988006595 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 221988006596 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 221988006597 dimerization interface [polypeptide binding]; other site 221988006598 domain crossover interface; other site 221988006599 redox-dependent activation switch; other site 221988006600 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 221988006601 RNA binding surface [nucleotide binding]; other site 221988006602 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 221988006603 AMP-binding enzyme; Region: AMP-binding; cl15778 221988006604 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 221988006605 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 221988006606 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 221988006607 Survival protein SurE; Region: SurE; cl00448 221988006608 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 221988006609 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 221988006610 Permutation of conserved domain; other site 221988006611 active site 221988006612 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 221988006613 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 221988006614 homotrimer interaction site [polypeptide binding]; other site 221988006615 zinc binding site [ion binding]; other site 221988006616 CDP-binding sites; other site 221988006617 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 221988006618 substrate binding site; other site 221988006619 dimer interface; other site 221988006620 Septum formation initiator; Region: DivIC; cl11433 221988006621 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 221988006622 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 221988006623 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 221988006624 4Fe-4S binding domain; Region: Fer4_5; pfam12801 221988006625 4Fe-4S binding domain; Region: Fer4; cl02805 221988006626 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 221988006627 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 221988006628 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 221988006629 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 221988006630 [4Fe-4S] binding site [ion binding]; other site 221988006631 molybdopterin cofactor binding site; other site 221988006632 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 221988006633 molybdopterin cofactor binding site; other site 221988006634 NapD protein; Region: NapD; cl01163 221988006635 ferredoxin-type protein NapF; Region: napF; TIGR00402 221988006636 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 221988006637 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 221988006638 4Fe-4S binding domain; Region: Fer4; cl02805 221988006639 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 221988006640 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 221988006641 putative substrate translocation pore; other site 221988006642 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 221988006643 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 221988006644 active site 221988006645 phosphorylation site [posttranslational modification] 221988006646 intermolecular recognition site; other site 221988006647 dimerization interface [polypeptide binding]; other site 221988006648 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 221988006649 DNA binding residues [nucleotide binding] 221988006650 dimerization interface [polypeptide binding]; other site 221988006651 sensory histidine kinase UhpB; Provisional; Region: PRK11644 221988006652 MASE1; Region: MASE1; pfam05231 221988006653 Histidine kinase; Region: HisKA_3; pfam07730 221988006654 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 221988006655 ATP binding site [chemical binding]; other site 221988006656 Mg2+ binding site [ion binding]; other site 221988006657 G-X-G motif; other site 221988006658 regulatory protein UhpC; Provisional; Region: PRK11663 221988006659 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 221988006660 putative substrate translocation pore; other site 221988006661 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 221988006662 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 221988006663 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; cl01054 221988006664 Histidine kinase; Region: HisKA_3; pfam07730 221988006665 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 221988006666 ATP binding site [chemical binding]; other site 221988006667 Mg2+ binding site [ion binding]; other site 221988006668 G-X-G motif; other site 221988006669 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 221988006670 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 221988006671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006672 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 221988006673 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 221988006674 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 221988006675 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 221988006676 active site 221988006677 substrate-binding site [chemical binding]; other site 221988006678 metal-binding site [ion binding] 221988006679 ATP binding site [chemical binding]; other site 221988006680 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 221988006681 Helix-turn-helix domains; Region: HTH; cl00088 221988006682 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 221988006683 putative active site [active] 221988006684 putative FMN binding site [chemical binding]; other site 221988006685 putative substrate binding site [chemical binding]; other site 221988006686 putative catalytic residue [active] 221988006687 Helix-turn-helix domains; Region: HTH; cl00088 221988006688 putative transposase OrfB; Reviewed; Region: PHA02517 221988006689 HTH-like domain; Region: HTH_21; pfam13276 221988006690 Integrase core domain; Region: rve; cl01316 221988006691 Integrase core domain; Region: rve_3; cl15866 221988006692 TfoX N-terminal domain; Region: TfoX_N; cl01167 221988006693 TfoX N-terminal domain; Region: TfoX_N; cl01167 221988006694 DNA repair protein RadA; Region: sms; TIGR00416 221988006695 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 221988006696 Walker A motif/ATP binding site; other site 221988006697 ATP binding site [chemical binding]; other site 221988006698 Walker B motif; other site 221988006699 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 221988006700 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 221988006701 putative active site [active] 221988006702 putative metal binding residues [ion binding]; other site 221988006703 signature motif; other site 221988006704 putative triphosphate binding site [ion binding]; other site 221988006705 TIGR00153 family protein; Region: TIGR00153 221988006706 Phosphate transporter family; Region: PHO4; cl00396 221988006707 Phosphate transporter family; Region: PHO4; cl00396 221988006708 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 221988006709 Bacterial SH3 domain; Region: SH3_3; cl02551 221988006710 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 221988006711 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 221988006712 active site 221988006713 NTP binding site [chemical binding]; other site 221988006714 metal binding triad [ion binding]; metal-binding site 221988006715 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 221988006716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 221988006717 Zn2+ binding site [ion binding]; other site 221988006718 Mg2+ binding site [ion binding]; other site 221988006719 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 221988006720 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 221988006721 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 221988006722 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 221988006723 shikimate binding site; other site 221988006724 NAD(P) binding site [chemical binding]; other site 221988006725 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 221988006726 Helix-turn-helix domains; Region: HTH; cl00088 221988006727 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 221988006728 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 221988006729 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 221988006730 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 221988006731 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 221988006732 NodB motif; other site 221988006733 putative active site [active] 221988006734 putative catalytic site [active] 221988006735 Zn binding site [ion binding]; other site 221988006736 AmiB activator; Provisional; Region: PRK11637 221988006737 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 221988006738 catalytic core [active] 221988006739 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 221988006740 transcriptional activator RhaS; Provisional; Region: PRK13503 221988006741 Cupin domain; Region: Cupin_2; cl09118 221988006742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006743 transcriptional activator RhaR; Provisional; Region: PRK13501 221988006744 Cupin domain; Region: Cupin_2; cl09118 221988006745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006746 Domain of unknown function (DUF718); Region: DUF718; cl01281 221988006747 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 221988006748 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 221988006749 dimer interface [polypeptide binding]; other site 221988006750 active site 221988006751 metal binding site [ion binding]; metal-binding site 221988006752 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 221988006753 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 221988006754 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; cl00214 221988006755 intersubunit interface [polypeptide binding]; other site 221988006756 active site 221988006757 Zn2+ binding site [ion binding]; other site 221988006758 L-rhamnose isomerase; Provisional; Region: PRK01076 221988006759 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 221988006760 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 221988006761 N- and C-terminal domain interface [polypeptide binding]; other site 221988006762 active site 221988006763 catalytic site [active] 221988006764 metal binding site [ion binding]; metal-binding site 221988006765 ATP binding site [chemical binding]; other site 221988006766 rhamnulokinase; Provisional; Region: rhaB; PRK10640 221988006767 carbohydrate binding site [chemical binding]; other site 221988006768 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 221988006769 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 221988006770 substrate binding site [chemical binding]; other site 221988006771 hexamer interface [polypeptide binding]; other site 221988006772 metal binding site [ion binding]; metal-binding site 221988006773 phosphoglycolate phosphatase; Provisional; Region: PRK13222 221988006774 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 221988006775 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 221988006776 motif II; other site 221988006777 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 221988006778 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 221988006779 active site 221988006780 HIGH motif; other site 221988006781 dimer interface [polypeptide binding]; other site 221988006782 KMSKS motif; other site 221988006783 Mechanosensitive ion channel; Region: MS_channel; pfam00924 221988006784 ferredoxin-type protein NapF; Region: napF; TIGR00402 221988006785 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 221988006786 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 221988006787 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 221988006788 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 221988006789 selenocysteine synthase; Provisional; Region: PRK04311 221988006790 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 221988006791 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 221988006792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 221988006793 catalytic residue [active] 221988006794 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 221988006795 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 221988006796 G1 box; other site 221988006797 putative GEF interaction site [polypeptide binding]; other site 221988006798 GTP/Mg2+ binding site [chemical binding]; other site 221988006799 Switch I region; other site 221988006800 G2 box; other site 221988006801 G3 box; other site 221988006802 Switch II region; other site 221988006803 G4 box; other site 221988006804 G5 box; other site 221988006805 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 221988006806 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 221988006807 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 221988006808 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 221988006809 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 221988006810 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 221988006811 nudix motif; other site 221988006812 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 221988006813 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 221988006814 probable active site [active] 221988006815 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 221988006816 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 221988006817 active site 221988006818 motif I; other site 221988006819 motif II; other site 221988006820 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 221988006821 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 221988006822 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 221988006823 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 221988006824 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 221988006825 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 221988006826 alpha subunit interaction interface [polypeptide binding]; other site 221988006827 Walker A motif; other site 221988006828 ATP binding site [chemical binding]; other site 221988006829 Walker B motif; other site 221988006830 inhibitor binding site; inhibition site 221988006831 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 221988006832 ATP synthase; Region: ATP-synt; cl00365 221988006833 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 221988006834 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 221988006835 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 221988006836 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 221988006837 beta subunit interaction interface [polypeptide binding]; other site 221988006838 Walker A motif; other site 221988006839 ATP binding site [chemical binding]; other site 221988006840 Walker B motif; other site 221988006841 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 221988006842 Plant ATP synthase F0; Region: YMF19; cl07975 221988006843 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 221988006844 Plant ATP synthase F0; Region: YMF19; cl07975 221988006845 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 221988006846 ATP synthase subunit C; Region: ATP-synt_C; cl00466 221988006847 ATP synthase A chain; Region: ATP-synt_A; cl00413 221988006848 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; cl15754 221988006849 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 221988006850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006852 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 221988006853 transaldolase-like protein; Provisional; Region: PTZ00411 221988006854 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 221988006855 active site 221988006856 dimer interface [polypeptide binding]; other site 221988006857 catalytic residue [active] 221988006858 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 221988006859 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 221988006860 OstA-like protein; Region: OstA; cl00844 221988006861 Organic solvent tolerance protein; Region: OstA_C; pfam04453 221988006862 HupF/HypC family; Region: HupF_HypC; cl00394 221988006863 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 221988006864 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 221988006865 putative substrate-binding site; other site 221988006866 nickel binding site [ion binding]; other site 221988006867 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 221988006868 Polysulphide reductase, NrfD; Region: NrfD; cl01295 221988006869 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 221988006870 4Fe-4S binding domain; Region: Fer4; cl02805 221988006871 hydrogenase 2 small subunit; Provisional; Region: PRK10468 221988006872 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 221988006873 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 221988006874 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 221988006875 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 221988006876 S-adenosylmethionine binding site [chemical binding]; other site 221988006877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 221988006878 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 221988006879 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 221988006880 substrate binding site [chemical binding]; other site 221988006881 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 221988006882 substrate binding site [chemical binding]; other site 221988006883 ligand binding site [chemical binding]; other site 221988006884 isocitrate dehydrogenase; Validated; Region: PRK07362 221988006885 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 221988006886 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 221988006887 dimer interface [polypeptide binding]; other site 221988006888 Citrate synthase; Region: Citrate_synt; pfam00285 221988006889 active site 221988006890 citrylCoA binding site [chemical binding]; other site 221988006891 NADH binding [chemical binding]; other site 221988006892 cationic pore residues; other site 221988006893 oxalacetate/citrate binding site [chemical binding]; other site 221988006894 coenzyme A binding site [chemical binding]; other site 221988006895 catalytic triad [active] 221988006896 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 221988006897 xylulokinase; Provisional; Region: PRK15027 221988006898 N- and C-terminal domain interface [polypeptide binding]; other site 221988006899 active site 221988006900 catalytic site [active] 221988006901 metal binding site [ion binding]; metal-binding site 221988006902 xylulose binding site [chemical binding]; other site 221988006903 putative ATP binding site [chemical binding]; other site 221988006904 homodimer interface [polypeptide binding]; other site 221988006905 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 221988006906 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 221988006907 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 221988006908 putative substrate translocation pore; other site 221988006909 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 221988006910 putative dimerization interface [polypeptide binding]; other site 221988006911 putative ligand binding site [chemical binding]; other site 221988006912 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 221988006913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 221988006914 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 221988006915 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 221988006916 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 221988006917 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 221988006918 active pocket/dimerization site; other site 221988006919 active site 221988006920 phosphorylation site [posttranslational modification] 221988006921 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 221988006922 active site 221988006923 phosphorylation site [posttranslational modification] 221988006924 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; cl12031 221988006925 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 221988006926 Sodium:neurotransmitter symporter family; Region: SNF; cl11976