-- dump date 20120504_163039 -- class Genbank::misc_feature -- table misc_feature_note -- id note 370558000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 370558000002 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 370558000003 Walker A motif; other site 370558000004 ATP binding site [chemical binding]; other site 370558000005 Walker B motif; other site 370558000006 arginine finger; other site 370558000007 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 370558000008 DnaA box-binding interface [nucleotide binding]; other site 370558000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 370558000010 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 370558000011 putative DNA binding surface [nucleotide binding]; other site 370558000012 dimer interface [polypeptide binding]; other site 370558000013 beta-clamp/clamp loader binding surface; other site 370558000014 beta-clamp/translesion DNA polymerase binding surface; other site 370558000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 370558000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 370558000017 YchF GTPase; Region: YchF; cd01900 370558000018 G1 box; other site 370558000019 GTP/Mg2+ binding site [chemical binding]; other site 370558000020 Switch I region; other site 370558000021 G2 box; other site 370558000022 Switch II region; other site 370558000023 G3 box; other site 370558000024 G4 box; other site 370558000025 G5 box; other site 370558000026 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 370558000027 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 370558000028 putative active site [active] 370558000029 catalytic residue [active] 370558000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 370558000031 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 370558000032 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 370558000033 ATP binding site [chemical binding]; other site 370558000034 putative Mg++ binding site [ion binding]; other site 370558000035 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 370558000036 nucleotide binding region [chemical binding]; other site 370558000037 ATP-binding site [chemical binding]; other site 370558000038 TRCF domain; Region: TRCF; cl04088 370558000039 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 370558000040 Septum formation initiator; Region: DivIC; cl11433 370558000041 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 370558000042 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558000043 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 370558000044 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 370558000045 Ligand Binding Site [chemical binding]; other site 370558000046 B3/4 domain; Region: B3_4; cl11458 370558000047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558000048 active site 370558000049 FtsH Extracellular; Region: FtsH_ext; pfam06480 370558000050 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 370558000051 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 370558000052 Walker A motif; other site 370558000053 ATP binding site [chemical binding]; other site 370558000054 Walker B motif; other site 370558000055 arginine finger; other site 370558000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 370558000057 amino acid transporter; Region: 2A0306; TIGR00909 370558000058 Spore germination protein; Region: Spore_permease; cl15802 370558000059 Spore germination protein; Region: Spore_permease; cl15802 370558000060 Transposase; Region: DDE_Tnp_ISL3; pfam01610 370558000061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 370558000062 NlpC/P60 family; Region: NLPC_P60; cl11438 370558000063 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 370558000064 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 370558000065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558000066 active site 370558000067 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 370558000068 Recombination protein O N terminal; Region: RecO_N; cl15812 370558000069 Recombination protein O C terminal; Region: RecO_C; pfam02565 370558000070 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 370558000071 Phosphopantetheine attachment site; Region: PP-binding; cl09936 370558000072 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 370558000073 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 370558000074 ATP binding site [chemical binding]; other site 370558000075 active site 370558000076 substrate binding site [chemical binding]; other site 370558000077 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 370558000078 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 370558000079 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 370558000080 dimerization interface [polypeptide binding]; other site 370558000081 ATP binding site [chemical binding]; other site 370558000082 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 370558000083 dimerization interface [polypeptide binding]; other site 370558000084 ATP binding site [chemical binding]; other site 370558000085 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 370558000086 putative active site [active] 370558000087 catalytic triad [active] 370558000088 amidophosphoribosyltransferase; Provisional; Region: PRK07272 370558000089 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 370558000090 active site 370558000091 tetramer interface [polypeptide binding]; other site 370558000092 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558000093 active site 370558000094 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 370558000095 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 370558000096 dimerization interface [polypeptide binding]; other site 370558000097 putative ATP binding site [chemical binding]; other site 370558000098 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 370558000099 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 370558000100 active site 370558000101 substrate binding site [chemical binding]; other site 370558000102 cosubstrate binding site; other site 370558000103 catalytic site [active] 370558000104 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 370558000105 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 370558000106 purine monophosphate binding site [chemical binding]; other site 370558000107 dimer interface [polypeptide binding]; other site 370558000108 putative catalytic residues [active] 370558000109 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 370558000110 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 370558000111 Surface antigen [General function prediction only]; Region: COG3942 370558000112 NlpC/P60 family; Region: NLPC_P60; cl11438 370558000113 Bacterial SH3 domain; Region: SH3_3; cl02551 370558000114 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 370558000115 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 370558000116 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558000117 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 370558000118 AIR carboxylase; Region: AIRC; cl00310 370558000119 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 370558000120 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558000121 adenylosuccinate lyase; Provisional; Region: PRK07492 370558000122 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 370558000123 tetramer interface [polypeptide binding]; other site 370558000124 active site 370558000125 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 370558000126 non-specific DNA binding site [nucleotide binding]; other site 370558000127 salt bridge; other site 370558000128 sequence-specific DNA binding site [nucleotide binding]; other site 370558000129 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 370558000130 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 370558000131 Walker A motif; other site 370558000132 ATP binding site [chemical binding]; other site 370558000133 Walker B motif; other site 370558000134 arginine finger; other site 370558000135 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 370558000136 Low molecular weight phosphatase family; Region: LMWPc; cd00115 370558000137 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 370558000138 active site 370558000139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 370558000140 MORN repeat; Region: MORN; cl14787 370558000141 OpgC protein; Region: OpgC_C; cl00792 370558000142 Acyltransferase family; Region: Acyl_transf_3; pfam01757 370558000143 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 370558000144 catalytic triad [active] 370558000145 catalytic triad [active] 370558000146 oxyanion hole [active] 370558000147 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 370558000148 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 370558000149 putative catalytic cysteine [active] 370558000150 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 370558000151 putative active site [active] 370558000152 metal binding site [ion binding]; metal-binding site 370558000153 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 370558000154 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 370558000155 NAD binding site [chemical binding]; other site 370558000156 substrate binding site [chemical binding]; other site 370558000157 catalytic Zn binding site [ion binding]; other site 370558000158 tetramer interface [polypeptide binding]; other site 370558000159 structural Zn binding site [ion binding]; other site 370558000160 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 370558000161 MatE; Region: MatE; cl10513 370558000162 MatE; Region: MatE; cl10513 370558000163 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 370558000164 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 370558000165 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 370558000166 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 370558000167 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 370558000168 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 370558000169 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 370558000170 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 370558000171 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 370558000172 putative translocon binding site; other site 370558000173 protein-rRNA interface [nucleotide binding]; other site 370558000174 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 370558000175 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 370558000176 G-X-X-G motif; other site 370558000177 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 370558000178 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 370558000179 23S rRNA interface [nucleotide binding]; other site 370558000180 5S rRNA interface [nucleotide binding]; other site 370558000181 putative antibiotic binding site [chemical binding]; other site 370558000182 L25 interface [polypeptide binding]; other site 370558000183 L27 interface [polypeptide binding]; other site 370558000184 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 370558000185 23S rRNA interface [nucleotide binding]; other site 370558000186 putative translocon interaction site; other site 370558000187 signal recognition particle (SRP54) interaction site; other site 370558000188 L23 interface [polypeptide binding]; other site 370558000189 trigger factor interaction site; other site 370558000190 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 370558000191 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 370558000192 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 370558000193 KOW motif; Region: KOW; cl00354 370558000194 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 370558000195 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 370558000196 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 370558000197 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 370558000198 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 370558000199 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 370558000200 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 370558000201 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 370558000202 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 370558000203 5S rRNA interface [nucleotide binding]; other site 370558000204 L27 interface [polypeptide binding]; other site 370558000205 23S rRNA interface [nucleotide binding]; other site 370558000206 L5 interface [polypeptide binding]; other site 370558000207 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 370558000208 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 370558000209 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 370558000210 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 370558000211 23S rRNA binding site [nucleotide binding]; other site 370558000212 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 370558000213 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 370558000214 SecY translocase; Region: SecY; pfam00344 370558000215 adenylate kinase; Reviewed; Region: adk; PRK00279 370558000216 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 370558000217 AMP-binding site [chemical binding]; other site 370558000218 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 370558000219 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 370558000220 rRNA binding site [nucleotide binding]; other site 370558000221 predicted 30S ribosome binding site; other site 370558000222 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 370558000223 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 370558000224 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 370558000225 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 370558000226 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 370558000227 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 370558000228 alphaNTD homodimer interface [polypeptide binding]; other site 370558000229 alphaNTD - beta interaction site [polypeptide binding]; other site 370558000230 alphaNTD - beta' interaction site [polypeptide binding]; other site 370558000231 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 370558000232 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 370558000233 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 370558000234 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 370558000235 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 370558000236 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 370558000237 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 370558000238 Helix-turn-helix domains; Region: HTH; cl00088 370558000239 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 370558000240 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 370558000241 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 370558000242 ABC-ATPase subunit interface; other site 370558000243 dimer interface [polypeptide binding]; other site 370558000244 putative PBP binding regions; other site 370558000245 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 370558000246 nucleotide binding site/active site [active] 370558000247 HIT family signature motif; other site 370558000248 catalytic residue [active] 370558000249 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 370558000250 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 370558000251 active site 370558000252 HIGH motif; other site 370558000253 dimer interface [polypeptide binding]; other site 370558000254 KMSKS motif; other site 370558000255 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 370558000256 RNA binding surface [nucleotide binding]; other site 370558000257 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 370558000258 Transglycosylase; Region: Transgly; cl07896 370558000259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558000260 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 370558000261 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 370558000262 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 370558000263 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 370558000264 RPB10 interaction site [polypeptide binding]; other site 370558000265 RPB11 interaction site [polypeptide binding]; other site 370558000266 RPB12 interaction site [polypeptide binding]; other site 370558000267 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 370558000268 RPB3 interaction site [polypeptide binding]; other site 370558000269 RPB1 interaction site [polypeptide binding]; other site 370558000270 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 370558000271 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 370558000272 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 370558000273 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 370558000274 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 370558000275 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 370558000276 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 370558000277 G-loop; other site 370558000278 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 370558000279 DNA binding site [nucleotide binding] 370558000280 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 370558000281 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 370558000282 Type II/IV secretion system protein; Region: T2SE; pfam00437 370558000283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558000284 Walker A motif; other site 370558000285 ATP binding site [chemical binding]; other site 370558000286 Walker B motif; other site 370558000287 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 370558000288 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 370558000289 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 370558000290 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 370558000291 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 370558000292 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 370558000293 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 370558000294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000295 Acetokinase family; Region: Acetate_kinase; cl01029 370558000296 propionate/acetate kinase; Provisional; Region: PRK12379 370558000297 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 370558000298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000299 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 370558000300 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 370558000301 metal binding site [ion binding]; metal-binding site 370558000302 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 370558000303 catalytic residues [active] 370558000304 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 370558000305 putative tRNA-binding site [nucleotide binding]; other site 370558000306 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 370558000307 dimer interface [polypeptide binding]; other site 370558000308 ssDNA binding site [nucleotide binding]; other site 370558000309 tetramer (dimer of dimers) interface [polypeptide binding]; other site 370558000310 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 370558000311 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 370558000312 Substrate-binding site [chemical binding]; other site 370558000313 Substrate specificity [chemical binding]; other site 370558000314 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 370558000315 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 370558000316 FMN binding site [chemical binding]; other site 370558000317 active site 370558000318 catalytic residues [active] 370558000319 substrate binding site [chemical binding]; other site 370558000320 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 370558000321 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 370558000322 dimerization interface [polypeptide binding]; other site 370558000323 domain crossover interface; other site 370558000324 redox-dependent activation switch; other site 370558000325 Helix-turn-helix domains; Region: HTH; cl00088 370558000326 Helix-turn-helix domains; Region: HTH; cl00088 370558000327 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 370558000328 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 370558000329 TQXA domain; Region: TQXA_dom; TIGR03934 370558000330 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000331 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000332 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000333 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000334 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000335 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 370558000336 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 370558000337 active site 370558000338 catalytic site [active] 370558000339 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 370558000340 TQXA domain; Region: TQXA_dom; TIGR03934 370558000341 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 370558000342 Fibronectin-binding protein signal sequence; Region: Fb_signal; pfam08341 370558000343 TQXA domain; Region: TQXA_dom; TIGR03934 370558000344 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 370558000345 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 370558000346 Catalytic site [active] 370558000347 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 370558000348 T surface-antigen of pili; Region: FctA; pfam12892 370558000349 sortase B signal domain, QVPTGV class; Region: srtB_sig_QVPTGV; TIGR03065 370558000350 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 370558000351 active site 370558000352 catalytic site [active] 370558000353 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 370558000354 YSIRK-targeted surface antigen transcriptional regulator; Region: adjacent_YSIRK; TIGR04094 370558000355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 370558000356 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 370558000357 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 370558000358 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 370558000359 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 370558000360 domain interaction interfaces; other site 370558000361 putative Ca2+ binding sites [ion binding]; other site 370558000362 putative ligand binding motif; other site 370558000363 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 370558000364 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000365 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000366 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558000367 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 370558000368 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 370558000369 Helix-turn-helix domains; Region: HTH; cl00088 370558000370 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 370558000371 dimerization interface [polypeptide binding]; other site 370558000372 putative acyltransferase; Provisional; Region: PRK05790 370558000373 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 370558000374 dimer interface [polypeptide binding]; other site 370558000375 active site 370558000376 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 370558000377 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 370558000378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 370558000379 YheO-like PAS domain; Region: PAS_6; pfam08348 370558000380 Helix-turn-helix domains; Region: HTH; cl00088 370558000381 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 370558000382 homotrimer interaction site [polypeptide binding]; other site 370558000383 putative active site [active] 370558000384 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558000385 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 370558000386 V-type ATP synthase subunit I; Validated; Region: PRK05771 370558000387 V-type ATP synthase subunit K; Validated; Region: PRK06558 370558000388 ATP synthase subunit C; Region: ATP-synt_C; cl00466 370558000389 ATP synthase subunit C; Region: ATP-synt_C; cl00466 370558000390 Archaeal/vacuolar-type H+-ATPase subunit C [Energy production and conversion]; Region: NtpC; COG1527 370558000391 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 370558000392 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 370558000393 V-type ATP synthase subunit A; Provisional; Region: PRK04192 370558000394 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 370558000395 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 370558000396 Walker A motif/ATP binding site; other site 370558000397 Walker B motif; other site 370558000398 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 370558000399 V-type ATP synthase subunit B; Provisional; Region: PRK04196 370558000400 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 370558000401 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 370558000402 Walker A motif homologous position; other site 370558000403 Walker B motif; other site 370558000404 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 370558000405 ATP synthase subunit D; Region: ATP-synt_D; cl00613 370558000406 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 370558000407 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 370558000408 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 370558000409 GDP-binding site [chemical binding]; other site 370558000410 ACT binding site; other site 370558000411 IMP binding site; other site 370558000412 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 370558000413 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 370558000414 ligand binding site [chemical binding]; other site 370558000415 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 370558000416 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 370558000417 putative homodimer interface [polypeptide binding]; other site 370558000418 KOW motif; Region: KOW; cl00354 370558000419 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 370558000420 Thiol-activated cytolysin; Region: Thiol_cytolysin; pfam01289 370558000421 cystathionine beta-lyase; Provisional; Region: PRK08064 370558000422 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 370558000423 homodimer interface [polypeptide binding]; other site 370558000424 substrate-cofactor binding pocket; other site 370558000425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558000426 catalytic residue [active] 370558000427 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 370558000428 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 370558000429 HIGH motif; other site 370558000430 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 370558000431 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 370558000432 active site 370558000433 KMSKS motif; other site 370558000434 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 370558000435 tRNA binding surface [nucleotide binding]; other site 370558000436 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 370558000437 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 370558000438 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 370558000439 P-loop; other site 370558000440 active site 370558000441 phosphorylation site [posttranslational modification] 370558000442 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 370558000443 active site 370558000444 phosphorylation site [posttranslational modification] 370558000445 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 370558000446 active site 370558000447 dimer interface [polypeptide binding]; other site 370558000448 magnesium binding site [ion binding]; other site 370558000449 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 370558000450 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 370558000451 AP (apurinic/apyrimidinic) site pocket; other site 370558000452 DNA interaction; other site 370558000453 Metal-binding active site; metal-binding site 370558000454 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 370558000455 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 370558000456 intersubunit interface [polypeptide binding]; other site 370558000457 active site 370558000458 Zn2+ binding site [ion binding]; other site 370558000459 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 370558000460 Helix-turn-helix domains; Region: HTH; cl00088 370558000461 PRD domain; Region: PRD; cl15445 370558000462 PRD domain; Region: PRD; cl15445 370558000463 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 370558000464 P-loop; other site 370558000465 active site 370558000466 phosphorylation site [posttranslational modification] 370558000467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558000468 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 370558000469 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 370558000470 Walker A/P-loop; other site 370558000471 ATP binding site [chemical binding]; other site 370558000472 Q-loop/lid; other site 370558000473 ABC transporter signature motif; other site 370558000474 Walker B; other site 370558000475 D-loop; other site 370558000476 H-loop/switch region; other site 370558000477 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 370558000478 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 370558000479 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 370558000480 dimer interface [polypeptide binding]; other site 370558000481 conserved gate region; other site 370558000482 putative PBP binding loops; other site 370558000483 ABC-ATPase subunit interface; other site 370558000484 NMT1-like family; Region: NMT1_2; cl15260 370558000485 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 370558000486 DNA polymerase I; Provisional; Region: PRK05755 370558000487 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 370558000488 active site 370558000489 metal binding site 1 [ion binding]; metal-binding site 370558000490 putative 5' ssDNA interaction site; other site 370558000491 metal binding site 3; metal-binding site 370558000492 metal binding site 2 [ion binding]; metal-binding site 370558000493 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 370558000494 putative DNA binding site [nucleotide binding]; other site 370558000495 putative metal binding site [ion binding]; other site 370558000496 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 370558000497 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 370558000498 active site 370558000499 DNA binding site [nucleotide binding] 370558000500 catalytic site [active] 370558000501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000502 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 370558000503 metal binding site 2 [ion binding]; metal-binding site 370558000504 putative DNA binding helix; other site 370558000505 metal binding site 1 [ion binding]; metal-binding site 370558000506 dimer interface [polypeptide binding]; other site 370558000507 structural Zn2+ binding site [ion binding]; other site 370558000508 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 370558000509 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 370558000510 Active Sites [active] 370558000511 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 370558000512 ParB-like nuclease domain; Region: ParBc; cl02129 370558000513 Transposase; Region: DDE_Tnp_ISL3; pfam01610 370558000514 Integrase core domain; Region: rve_3; cl15866 370558000515 HTH-like domain; Region: HTH_21; pfam13276 370558000516 Integrase core domain; Region: rve; cl01316 370558000517 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 370558000518 transmembrane helices; other site 370558000519 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06559 370558000520 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 370558000521 dimerization interface [polypeptide binding]; other site 370558000522 active site 370558000523 putative transposase OrfB; Reviewed; Region: PHA02517 370558000524 HTH-like domain; Region: HTH_21; pfam13276 370558000525 Integrase core domain; Region: rve; cl01316 370558000526 Integrase core domain; Region: rve_3; cl15866 370558000527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 370558000528 Helix-turn-helix domains; Region: HTH; cl00088 370558000529 Protein of unknown function (DUF975); Region: DUF975; cl10504 370558000530 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 370558000531 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 370558000532 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 370558000533 CHY zinc finger; Region: zf-CHY; pfam05495 370558000534 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558000535 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558000536 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558000537 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558000538 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558000539 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 370558000540 nucleoside/Zn binding site; other site 370558000541 dimer interface [polypeptide binding]; other site 370558000542 catalytic motif [active] 370558000543 Uncharacterized protein involved in cytokinesis, contains TGc (transglutaminase/protease-like) domain [Cell division and chromosome partitioning]; Region: CYK3; COG5279 370558000544 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 370558000545 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 370558000546 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558000547 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 370558000548 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 370558000549 active site 370558000550 dimer interface [polypeptide binding]; other site 370558000551 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 370558000552 dimer interface [polypeptide binding]; other site 370558000553 active site 370558000554 Helix-turn-helix domains; Region: HTH; cl00088 370558000555 Helix-turn-helix domains; Region: HTH; cl00088 370558000556 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 370558000557 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558000558 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558000559 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558000560 Rhomboid family; Region: Rhomboid; cl11446 370558000561 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 370558000562 active site 370558000563 tetramer interface; other site 370558000564 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 370558000565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000566 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 370558000567 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 370558000568 Helix-turn-helix domains; Region: HTH; cl00088 370558000569 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 370558000570 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558000571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558000572 Walker A/P-loop; other site 370558000573 ATP binding site [chemical binding]; other site 370558000574 Q-loop/lid; other site 370558000575 ABC transporter signature motif; other site 370558000576 Walker B; other site 370558000577 D-loop; other site 370558000578 H-loop/switch region; other site 370558000579 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 370558000580 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558000581 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 370558000582 Walker A/P-loop; other site 370558000583 ATP binding site [chemical binding]; other site 370558000584 Q-loop/lid; other site 370558000585 ABC transporter signature motif; other site 370558000586 Walker B; other site 370558000587 D-loop; other site 370558000588 H-loop/switch region; other site 370558000589 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 370558000590 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 370558000591 trimer interface [polypeptide binding]; other site 370558000592 active site 370558000593 DNA repair protein RadA; Provisional; Region: PRK11823 370558000594 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 370558000595 Walker A motif/ATP binding site; other site 370558000596 ATP binding site [chemical binding]; other site 370558000597 Walker B motif; other site 370558000598 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 370558000599 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_cladeD; cd03379 370558000600 active site clefts [active] 370558000601 zinc binding site [ion binding]; other site 370558000602 dimer interface [polypeptide binding]; other site 370558000603 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 370558000604 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 370558000605 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 370558000606 active site 370558000607 HIGH motif; other site 370558000608 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 370558000609 active site 370558000610 KMSKS motif; other site 370558000611 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 370558000612 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; cl00075 370558000613 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 370558000614 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 370558000615 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 370558000616 active site 370558000617 phosphorylation site [posttranslational modification] 370558000618 intermolecular recognition site; other site 370558000619 dimerization interface [polypeptide binding]; other site 370558000620 LytTr DNA-binding domain; Region: LytTR; cl04498 370558000621 Ribonuclease P; Region: Ribonuclease_P; cl00457 370558000622 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 370558000623 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 370558000624 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 370558000625 G-X-X-G motif; other site 370558000626 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 370558000627 RxxxH motif; other site 370558000628 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 370558000629 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 370558000630 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 370558000631 putative active site cavity [active] 370558000632 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 370558000633 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 370558000634 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 370558000635 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 370558000636 dimer interface [polypeptide binding]; other site 370558000637 ABC-ATPase subunit interface; other site 370558000638 putative PBP binding loops; other site 370558000639 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 370558000640 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 370558000641 dimer interface [polypeptide binding]; other site 370558000642 conserved gate region; other site 370558000643 putative PBP binding loops; other site 370558000644 ABC-ATPase subunit interface; other site 370558000645 Protein of unknown function, DUF624; Region: DUF624; cl02369 370558000646 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 370558000647 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 370558000648 catalytic residue [active] 370558000649 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 370558000650 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 370558000651 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 370558000652 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 370558000653 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 370558000654 putative active site [active] 370558000655 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 370558000656 active site 370558000657 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 370558000658 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 370558000659 putative active site [active] 370558000660 putative metal binding site [ion binding]; other site 370558000661 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 370558000662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000663 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 370558000664 RNA binding site [nucleotide binding]; other site 370558000665 homodimer interface [polypeptide binding]; other site 370558000666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558000667 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 370558000668 GTPase/Zn-binding domain interface [polypeptide binding]; other site 370558000669 GTP/Mg2+ binding site [chemical binding]; other site 370558000670 G4 box; other site 370558000671 G1 box; other site 370558000672 Switch I region; other site 370558000673 G2 box; other site 370558000674 G3 box; other site 370558000675 Switch II region; other site 370558000676 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 370558000677 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 370558000678 substrate binding site [chemical binding]; other site 370558000679 hexamer interface [polypeptide binding]; other site 370558000680 metal binding site [ion binding]; metal-binding site 370558000681 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 370558000682 Thiamine pyrophosphokinase; Region: TPK; cd07995 370558000683 active site 370558000684 dimerization interface [polypeptide binding]; other site 370558000685 thiamine binding site [chemical binding]; other site 370558000686 RmuC family; Region: RmuC; pfam02646 370558000687 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 370558000688 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 370558000689 generic binding surface II; other site 370558000690 generic binding surface I; other site 370558000691 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558000692 pur operon repressor; Provisional; Region: PRK09213 370558000693 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 370558000694 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558000695 active site 370558000696 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 370558000697 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 370558000698 S17 interaction site [polypeptide binding]; other site 370558000699 S8 interaction site; other site 370558000700 16S rRNA interaction site [nucleotide binding]; other site 370558000701 streptomycin interaction site [chemical binding]; other site 370558000702 23S rRNA interaction site [nucleotide binding]; other site 370558000703 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 370558000704 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 370558000705 elongation factor G; Reviewed; Region: PRK00007 370558000706 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 370558000707 G1 box; other site 370558000708 putative GEF interaction site [polypeptide binding]; other site 370558000709 GTP/Mg2+ binding site [chemical binding]; other site 370558000710 Switch I region; other site 370558000711 G2 box; other site 370558000712 G3 box; other site 370558000713 Switch II region; other site 370558000714 G4 box; other site 370558000715 G5 box; other site 370558000716 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 370558000717 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 370558000718 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 370558000719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000720 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 370558000721 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 370558000722 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 370558000723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558000724 Walker A/P-loop; other site 370558000725 ATP binding site [chemical binding]; other site 370558000726 Q-loop/lid; other site 370558000727 ABC transporter signature motif; other site 370558000728 Walker B; other site 370558000729 D-loop; other site 370558000730 H-loop/switch region; other site 370558000731 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 370558000732 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558000733 substrate binding pocket [chemical binding]; other site 370558000734 membrane-bound complex binding site; other site 370558000735 hinge residues; other site 370558000736 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 370558000737 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 370558000738 dimer interface [polypeptide binding]; other site 370558000739 conserved gate region; other site 370558000740 putative PBP binding loops; other site 370558000741 ABC-ATPase subunit interface; other site 370558000742 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 370558000743 Bacitracin resistance protein BacA; Region: BacA; cl00858 370558000744 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 370558000745 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 370558000746 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 370558000747 Mg++ binding site [ion binding]; other site 370558000748 putative catalytic motif [active] 370558000749 substrate binding site [chemical binding]; other site 370558000750 FeS assembly ATPase SufC; Region: sufC; TIGR01978 370558000751 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 370558000752 Walker A/P-loop; other site 370558000753 ATP binding site [chemical binding]; other site 370558000754 Q-loop/lid; other site 370558000755 ABC transporter signature motif; other site 370558000756 Walker B; other site 370558000757 D-loop; other site 370558000758 H-loop/switch region; other site 370558000759 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 370558000760 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 370558000761 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 370558000762 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 370558000763 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 370558000764 catalytic residue [active] 370558000765 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 370558000766 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 370558000767 trimerization site [polypeptide binding]; other site 370558000768 active site 370558000769 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 370558000770 FeS assembly protein SufB; Region: sufB; TIGR01980 370558000771 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 370558000772 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558000773 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 370558000774 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558000775 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 370558000776 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 370558000777 peptide binding site [polypeptide binding]; other site 370558000778 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 370558000779 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 370558000780 dimer interface [polypeptide binding]; other site 370558000781 conserved gate region; other site 370558000782 putative PBP binding loops; other site 370558000783 ABC-ATPase subunit interface; other site 370558000784 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 370558000785 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 370558000786 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 370558000787 dimer interface [polypeptide binding]; other site 370558000788 conserved gate region; other site 370558000789 putative PBP binding loops; other site 370558000790 ABC-ATPase subunit interface; other site 370558000791 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 370558000792 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 370558000793 Walker A/P-loop; other site 370558000794 ATP binding site [chemical binding]; other site 370558000795 Q-loop/lid; other site 370558000796 ABC transporter signature motif; other site 370558000797 Walker B; other site 370558000798 D-loop; other site 370558000799 H-loop/switch region; other site 370558000800 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 370558000801 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 370558000802 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 370558000803 Walker A/P-loop; other site 370558000804 ATP binding site [chemical binding]; other site 370558000805 Q-loop/lid; other site 370558000806 ABC transporter signature motif; other site 370558000807 Walker B; other site 370558000808 D-loop; other site 370558000809 H-loop/switch region; other site 370558000810 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 370558000811 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 370558000812 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 370558000813 active site 370558000814 motif I; other site 370558000815 motif II; other site 370558000816 GTPase YqeH; Provisional; Region: PRK13796 370558000817 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 370558000818 GTP/Mg2+ binding site [chemical binding]; other site 370558000819 G4 box; other site 370558000820 G5 box; other site 370558000821 G1 box; other site 370558000822 Switch I region; other site 370558000823 G2 box; other site 370558000824 G3 box; other site 370558000825 Switch II region; other site 370558000826 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 370558000827 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 370558000828 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 370558000829 active site 370558000830 (T/H)XGH motif; other site 370558000831 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 370558000832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558000833 Oligomerisation domain; Region: Oligomerisation; cl00519 370558000834 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 370558000835 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 370558000836 S-adenosylmethionine binding site [chemical binding]; other site 370558000837 hypothetical protein; Provisional; Region: PRK13670 370558000838 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 370558000839 Transcriptional regulator; Region: Transcrip_reg; cl00361 370558000840 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 370558000841 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558000842 substrate binding pocket [chemical binding]; other site 370558000843 membrane-bound complex binding site; other site 370558000844 hinge residues; other site 370558000845 NMT1-like family; Region: NMT1_2; cl15260 370558000846 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 370558000847 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 370558000848 Walker A/P-loop; other site 370558000849 ATP binding site [chemical binding]; other site 370558000850 Q-loop/lid; other site 370558000851 ABC transporter signature motif; other site 370558000852 Walker B; other site 370558000853 D-loop; other site 370558000854 H-loop/switch region; other site 370558000855 NIL domain; Region: NIL; cl09633 370558000856 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 370558000857 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 370558000858 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 370558000859 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 370558000860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000861 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 370558000862 Cation transport protein; Region: TrkH; cl10514 370558000863 Methyltransferase domain; Region: Methyltransf_31; pfam13847 370558000864 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 370558000865 S-adenosylmethionine binding site [chemical binding]; other site 370558000866 LemA family; Region: LemA; cl00742 370558000867 Peptidase family M48; Region: Peptidase_M48; cl12018 370558000868 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 370558000869 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558000870 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 370558000871 active site 370558000872 phosphorylation site [posttranslational modification] 370558000873 intermolecular recognition site; other site 370558000874 dimerization interface [polypeptide binding]; other site 370558000875 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 370558000876 DNA binding site [nucleotide binding] 370558000877 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 370558000878 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 370558000879 dimerization interface [polypeptide binding]; other site 370558000880 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 370558000881 dimer interface [polypeptide binding]; other site 370558000882 phosphorylation site [posttranslational modification] 370558000883 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 370558000884 ATP binding site [chemical binding]; other site 370558000885 Mg2+ binding site [ion binding]; other site 370558000886 G-X-G motif; other site 370558000887 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 370558000888 ATP cone domain; Region: ATP-cone; pfam03477 370558000889 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 370558000890 primosomal protein DnaI; Reviewed; Region: PRK08939 370558000891 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 370558000892 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 370558000893 Walker A motif; other site 370558000894 ATP binding site [chemical binding]; other site 370558000895 Walker B motif; other site 370558000896 GTP-binding protein Der; Reviewed; Region: PRK00093 370558000897 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 370558000898 G1 box; other site 370558000899 GTP/Mg2+ binding site [chemical binding]; other site 370558000900 Switch I region; other site 370558000901 G2 box; other site 370558000902 Switch II region; other site 370558000903 G3 box; other site 370558000904 G4 box; other site 370558000905 G5 box; other site 370558000906 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 370558000907 G1 box; other site 370558000908 GTP/Mg2+ binding site [chemical binding]; other site 370558000909 Switch I region; other site 370558000910 G2 box; other site 370558000911 G3 box; other site 370558000912 Switch II region; other site 370558000913 G4 box; other site 370558000914 G5 box; other site 370558000915 SWIM zinc finger; Region: SWIM; cl15408 370558000916 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 370558000917 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 370558000918 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 370558000919 ATP binding site [chemical binding]; other site 370558000920 putative Mg++ binding site [ion binding]; other site 370558000921 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 370558000922 nucleotide binding region [chemical binding]; other site 370558000923 ATP-binding site [chemical binding]; other site 370558000924 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 370558000925 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 370558000926 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558000927 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558000928 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558000929 YceG-like family; Region: YceG; pfam02618 370558000930 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 370558000931 dimerization interface [polypeptide binding]; other site 370558000932 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 370558000933 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 370558000934 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 370558000935 OxaA-like protein precursor; Provisional; Region: PRK02463 370558000936 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 370558000937 Acylphosphatase; Region: Acylphosphatase; cl00551 370558000938 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 370558000939 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 370558000940 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 370558000941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558000942 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 370558000943 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 370558000944 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 370558000945 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 370558000946 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 370558000947 active site 370558000948 dimerization interface [polypeptide binding]; other site 370558000949 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 370558000950 active site 370558000951 metal binding site [ion binding]; metal-binding site 370558000952 homotetramer interface [polypeptide binding]; other site 370558000953 FOG: CBS domain [General function prediction only]; Region: COG0517 370558000954 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 370558000955 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 370558000956 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 370558000957 DNA binding site [nucleotide binding] 370558000958 Int/Topo IB signature motif; other site 370558000959 active site 370558000960 catalytic residues [active] 370558000961 ScpA/B protein; Region: ScpA_ScpB; cl00598 370558000962 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 370558000963 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 370558000964 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 370558000965 RNA binding surface [nucleotide binding]; other site 370558000966 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 370558000967 active site 370558000968 Haemolytic domain; Region: Haemolytic; cl00506 370558000969 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 370558000970 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558000971 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 370558000972 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 370558000973 active site 370558000974 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 370558000975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558000977 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 370558000978 Domain of unknown function DUF21; Region: DUF21; pfam01595 370558000979 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 370558000980 Transporter associated domain; Region: CorC_HlyC; cl08393 370558000981 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 370558000982 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 370558000983 FeS/SAM binding site; other site 370558000984 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 370558000985 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 370558000986 DHHA2 domain; Region: DHHA2; pfam02833 370558000987 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 370558000988 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 370558000989 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 370558000990 ABC-ATPase subunit interface; other site 370558000991 dimer interface [polypeptide binding]; other site 370558000992 putative PBP binding regions; other site 370558000993 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 370558000994 ABC-ATPase subunit interface; other site 370558000995 dimer interface [polypeptide binding]; other site 370558000996 putative PBP binding regions; other site 370558000997 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 370558000998 Periplasmic binding protein FeuA. These proteins have predicted to function as initial receptors in ABC transport of metal ions in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: FeuA; cd01138 370558000999 putative ligand binding residues [chemical binding]; other site 370558001000 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 370558001001 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 370558001002 Walker A/P-loop; other site 370558001003 ATP binding site [chemical binding]; other site 370558001004 Q-loop/lid; other site 370558001005 ABC transporter signature motif; other site 370558001006 Walker B; other site 370558001007 D-loop; other site 370558001008 H-loop/switch region; other site 370558001009 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 370558001010 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 370558001011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558001012 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558001013 MatE; Region: MatE; cl10513 370558001014 MviN-like protein; Region: MVIN; pfam03023 370558001015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558001016 active site 370558001017 Clp protease; Region: CLP_protease; pfam00574 370558001018 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 370558001019 oligomer interface [polypeptide binding]; other site 370558001020 active site residues [active] 370558001021 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 370558001022 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558001023 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558001024 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558001025 thymidylate kinase; Validated; Region: tmk; PRK00698 370558001026 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 370558001027 TMP-binding site; other site 370558001028 ATP-binding site [chemical binding]; other site 370558001029 DNA polymerase III subunit delta'; Validated; Region: PRK07276 370558001030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001031 PSP1 C-terminal conserved region; Region: PSP1; cl00770 370558001032 PSP1 C-terminal conserved region; Region: PSP1; cl00770 370558001033 TSC-22/dip/bun family; Region: TSC22; cl01853 370558001034 Predicted methyltransferases [General function prediction only]; Region: COG0313 370558001035 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 370558001036 CutC family; Region: CutC; cl01218 370558001037 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 370558001038 ArsC family; Region: ArsC; pfam03960 370558001039 putative ArsC-like catalytic residues; other site 370558001040 putative TRX-like catalytic residues [active] 370558001041 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 370558001042 active site 370558001043 DNA binding site [nucleotide binding] 370558001044 putative phosphate binding site [ion binding]; other site 370558001045 putative catalytic site [active] 370558001046 metal binding site A [ion binding]; metal-binding site 370558001047 AP binding site [nucleotide binding]; other site 370558001048 metal binding site B [ion binding]; metal-binding site 370558001049 L-lactate oxidase; Region: L_lactate_ox; TIGR02708 370558001050 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes...; Region: LOX_like_FMN; cd04737 370558001051 teramer interface [polypeptide binding]; other site 370558001052 active site 370558001053 FMN binding site [chemical binding]; other site 370558001054 catalytic residues [active] 370558001055 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 370558001056 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 370558001057 putative active site [active] 370558001058 catalytic triad [active] 370558001059 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 370558001060 putative integrin binding motif; other site 370558001061 PA/protease domain interface [polypeptide binding]; other site 370558001062 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 370558001063 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 370558001064 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 370558001065 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 370558001066 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 370558001067 active site 370558001068 HIGH motif; other site 370558001069 KMSKS motif; other site 370558001070 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 370558001071 tRNA binding surface [nucleotide binding]; other site 370558001072 anticodon binding site; other site 370558001073 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 370558001074 dimer interface [polypeptide binding]; other site 370558001075 putative tRNA-binding site [nucleotide binding]; other site 370558001076 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 370558001077 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 370558001078 dimer interface [polypeptide binding]; other site 370558001079 putative radical transfer pathway; other site 370558001080 diiron center [ion binding]; other site 370558001081 tyrosyl radical; other site 370558001082 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 370558001083 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 370558001084 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 370558001085 Class I ribonucleotide reductase; Region: RNR_I; cd01679 370558001086 active site 370558001087 dimer interface [polypeptide binding]; other site 370558001088 catalytic residues [active] 370558001089 effector binding site; other site 370558001090 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 370558001091 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cd00233 370558001092 active site 370558001093 conformational flexibility of ligand binding pocket; other site 370558001094 ADP-ribosylating toxin turn-turn motif; other site 370558001095 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 370558001096 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 370558001097 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 370558001098 classical (c) SDRs; Region: SDR_c; cd05233 370558001099 NAD(P) binding site [chemical binding]; other site 370558001100 active site 370558001101 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 370558001102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001103 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 370558001104 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 370558001105 putative substrate translocation pore; other site 370558001106 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 370558001107 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 370558001108 Substrate binding site; other site 370558001109 Mg++ binding site; other site 370558001110 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 370558001111 active site 370558001112 substrate binding site [chemical binding]; other site 370558001113 CoA binding site [chemical binding]; other site 370558001114 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 370558001115 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 370558001116 dimer interface [polypeptide binding]; other site 370558001117 ADP-ribose binding site [chemical binding]; other site 370558001118 active site 370558001119 nudix motif; other site 370558001120 metal binding site [ion binding]; metal-binding site 370558001121 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558001122 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 370558001123 Helix-turn-helix domains; Region: HTH; cl00088 370558001124 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 370558001125 FeoA domain; Region: FeoA; cl00838 370558001126 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 370558001127 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 370558001128 metal binding site [ion binding]; metal-binding site 370558001129 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 370558001130 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 370558001131 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 370558001132 ABC-ATPase subunit interface; other site 370558001133 dimer interface [polypeptide binding]; other site 370558001134 putative PBP binding regions; other site 370558001135 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 370558001136 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 370558001137 active site 370558001138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001139 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 370558001140 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 370558001141 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 370558001142 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 370558001143 23S rRNA interface [nucleotide binding]; other site 370558001144 L7/L12 interface [polypeptide binding]; other site 370558001145 putative thiostrepton binding site; other site 370558001146 L25 interface [polypeptide binding]; other site 370558001147 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 370558001148 mRNA/rRNA interface [nucleotide binding]; other site 370558001149 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 370558001150 putative nucleotide binding site [chemical binding]; other site 370558001151 uridine monophosphate binding site [chemical binding]; other site 370558001152 homohexameric interface [polypeptide binding]; other site 370558001153 ribosome recycling factor; Reviewed; Region: frr; PRK00083 370558001154 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 370558001155 hinge region; other site 370558001156 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 370558001157 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 370558001158 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 370558001159 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 370558001160 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 370558001161 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 370558001162 putative peptidoglycan binding site; other site 370558001163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001164 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 370558001165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001166 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 370558001167 putative uracil binding site [chemical binding]; other site 370558001168 putative active site [active] 370558001169 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 370558001170 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 370558001171 GTPase Era; Reviewed; Region: era; PRK00089 370558001172 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 370558001173 G1 box; other site 370558001174 GTP/Mg2+ binding site [chemical binding]; other site 370558001175 Switch I region; other site 370558001176 G2 box; other site 370558001177 Switch II region; other site 370558001178 G3 box; other site 370558001179 G4 box; other site 370558001180 G5 box; other site 370558001181 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 370558001182 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_18; cd04677 370558001183 nudix motif; other site 370558001184 Transposase, Mutator family; Region: Transposase_mut; pfam00872 370558001185 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 370558001186 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 370558001187 non-specific DNA binding site [nucleotide binding]; other site 370558001188 salt bridge; other site 370558001189 sequence-specific DNA binding site [nucleotide binding]; other site 370558001190 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 370558001191 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 370558001192 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 370558001193 DNA binding site [nucleotide binding] 370558001194 catalytic residue [active] 370558001195 H2TH interface [polypeptide binding]; other site 370558001196 putative catalytic residues [active] 370558001197 turnover-facilitating residue; other site 370558001198 intercalation triad [nucleotide binding]; other site 370558001199 8OG recognition residue [nucleotide binding]; other site 370558001200 putative reading head residues; other site 370558001201 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 370558001202 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 370558001203 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 370558001204 CoA-binding site [chemical binding]; other site 370558001205 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 370558001206 Domain of unknown function DUF87; Region: DUF87; pfam01935 370558001207 drug efflux system protein MdtG; Provisional; Region: PRK09874 370558001208 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 370558001209 putative substrate translocation pore; other site 370558001210 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 370558001211 Preprotein translocase SecG subunit; Region: SecG; cl09123 370558001212 ribonuclease R; Region: RNase_R; TIGR02063 370558001213 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 370558001214 RNB domain; Region: RNB; pfam00773 370558001215 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 370558001216 RNA binding site [nucleotide binding]; other site 370558001217 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 370558001218 SmpB-tmRNA interface; other site 370558001219 Glutamine cyclotransferase; Region: Glu_cyclase_2; pfam05096 370558001220 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 370558001221 putative substrate binding pocket [chemical binding]; other site 370558001222 AC domain interface; other site 370558001223 catalytic triad [active] 370558001224 AB domain interface; other site 370558001225 interchain disulfide; other site 370558001226 Protein of unknown function (DUF979); Region: DUF979; cl01572 370558001227 Protein of unknown function (DUF969); Region: DUF969; cl01573 370558001228 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 370558001229 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 370558001230 Ligand binding site; other site 370558001231 Putative Catalytic site; other site 370558001232 DXD motif; other site 370558001233 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 370558001234 dimer interface [polypeptide binding]; other site 370558001235 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 370558001236 active site 370558001237 metal binding site [ion binding]; metal-binding site 370558001238 glutathione binding site [chemical binding]; other site 370558001239 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 370558001240 dimer interface [polypeptide binding]; other site 370558001241 FMN binding site [chemical binding]; other site 370558001242 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 370558001243 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 370558001244 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 370558001245 active site 370558001246 catabolite control protein A; Region: ccpA; TIGR01481 370558001247 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 370558001248 DNA binding site [nucleotide binding] 370558001249 domain linker motif; other site 370558001250 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 370558001251 dimerization interface [polypeptide binding]; other site 370558001252 effector binding site; other site 370558001253 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 370558001254 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 370558001255 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 370558001256 putative ADP-binding pocket [chemical binding]; other site 370558001257 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 370558001258 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 370558001259 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 370558001260 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 370558001261 active site 370558001262 dimer interface [polypeptide binding]; other site 370558001263 motif 1; other site 370558001264 motif 2; other site 370558001265 motif 3; other site 370558001266 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 370558001267 anticodon binding site; other site 370558001268 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 370558001269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001270 Walker A/P-loop; other site 370558001271 ATP binding site [chemical binding]; other site 370558001272 Q-loop/lid; other site 370558001273 ABC transporter signature motif; other site 370558001274 Walker B; other site 370558001275 D-loop; other site 370558001276 H-loop/switch region; other site 370558001277 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 370558001278 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 370558001279 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 370558001280 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 370558001281 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 370558001282 dimer interface [polypeptide binding]; other site 370558001283 active site 370558001284 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 370558001285 AMP-binding enzyme; Region: AMP-binding; cl15778 370558001286 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 370558001287 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558001288 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 370558001289 active site 370558001290 phosphorylation site [posttranslational modification] 370558001291 intermolecular recognition site; other site 370558001292 dimerization interface [polypeptide binding]; other site 370558001293 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 370558001294 DNA binding site [nucleotide binding] 370558001295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 370558001296 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 370558001297 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 370558001298 dimer interface [polypeptide binding]; other site 370558001299 phosphorylation site [posttranslational modification] 370558001300 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 370558001301 ATP binding site [chemical binding]; other site 370558001302 Mg2+ binding site [ion binding]; other site 370558001303 G-X-G motif; other site 370558001304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558001305 ribonuclease III; Reviewed; Region: rnc; PRK00102 370558001306 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 370558001307 dimerization interface [polypeptide binding]; other site 370558001308 active site 370558001309 metal binding site [ion binding]; metal-binding site 370558001310 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 370558001311 dsRNA binding site [nucleotide binding]; other site 370558001312 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 370558001313 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 370558001314 Walker A/P-loop; other site 370558001315 ATP binding site [chemical binding]; other site 370558001316 Q-loop/lid; other site 370558001317 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 370558001318 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 370558001319 ABC transporter signature motif; other site 370558001320 Walker B; other site 370558001321 D-loop; other site 370558001322 H-loop/switch region; other site 370558001323 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 370558001324 non-specific DNA binding site [nucleotide binding]; other site 370558001325 salt bridge; other site 370558001326 sequence-specific DNA binding site [nucleotide binding]; other site 370558001327 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 370558001328 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 370558001329 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 370558001330 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 370558001331 shikimate binding site; other site 370558001332 NAD(P) binding site [chemical binding]; other site 370558001333 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 370558001334 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 370558001335 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 370558001336 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 370558001337 Archaeal S-adenosylmethionine synthetase [Amino acid transport and metabolism]; Region: MetK; COG1812 370558001338 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 370558001339 active site 370558001340 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 370558001341 active site 370558001342 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 370558001343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001344 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 370558001345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001346 Ferroportin1 (FPN1); Region: FPN1; pfam06963 370558001347 H+ Antiporter protein; Region: 2A0121; TIGR00900 370558001348 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 370558001349 RelB antitoxin; Region: RelB; cl01171 370558001350 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 370558001351 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 370558001352 active site 370558001353 motif 3; other site 370558001354 HTH-like domain; Region: HTH_21; pfam13276 370558001355 Integrase core domain; Region: rve; cl01316 370558001356 Helix-turn-helix domains; Region: HTH; cl00088 370558001357 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 370558001358 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558001359 active site 370558001360 motif I; other site 370558001361 motif II; other site 370558001362 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 370558001363 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 370558001364 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558001365 active site 370558001366 motif I; other site 370558001367 motif II; other site 370558001368 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558001369 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 370558001370 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 370558001371 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 370558001372 P loop; other site 370558001373 GTP binding site [chemical binding]; other site 370558001374 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 370558001375 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 370558001376 putative substrate translocation pore; other site 370558001377 transcriptional antiterminator BglG; Provisional; Region: PRK09772 370558001378 CAT RNA binding domain; Region: CAT_RBD; cl03904 370558001379 PRD domain; Region: PRD; cl15445 370558001380 PRD domain; Region: PRD; cl15445 370558001381 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 370558001382 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 370558001383 active site turn [active] 370558001384 phosphorylation site [posttranslational modification] 370558001385 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558001386 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 370558001387 HPr interaction site; other site 370558001388 glycerol kinase (GK) interaction site [polypeptide binding]; other site 370558001389 active site 370558001390 phosphorylation site [posttranslational modification] 370558001391 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 370558001392 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 370558001393 Predicted permeases [General function prediction only]; Region: COG0701 370558001394 Predicted permease; Region: DUF318; pfam03773 370558001395 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 370558001396 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 370558001397 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 370558001398 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 370558001399 RNA binding site [nucleotide binding]; other site 370558001400 SprT homologues; Region: SprT; cl01182 370558001401 hypothetical protein; Provisional; Region: PRK04351 370558001402 PspC domain; Region: PspC; cl00864 370558001403 HPr kinase/phosphorylase; Provisional; Region: PRK05428 370558001404 DRTGG domain; Region: DRTGG; cl12147 370558001405 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 370558001406 Hpr binding site; other site 370558001407 active site 370558001408 homohexamer subunit interaction site [polypeptide binding]; other site 370558001409 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 370558001410 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 370558001411 YtxH-like protein; Region: YtxH; cl02079 370558001412 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 370558001413 coenzyme PQQ biosynthesis enzyme PqqE; Region: PQQ_syn_pqqE; TIGR02109 370558001414 Peptidase family U32; Region: Peptidase_U32; cl03113 370558001415 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 370558001416 Peptidase family U32; Region: Peptidase_U32; cl03113 370558001417 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 370558001418 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 370558001419 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 370558001420 dimer interface [polypeptide binding]; other site 370558001421 putative anticodon binding site; other site 370558001422 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 370558001423 motif 1; other site 370558001424 active site 370558001425 motif 2; other site 370558001426 motif 3; other site 370558001427 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 370558001428 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 370558001429 motif II; other site 370558001430 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 370558001431 catalytic core [active] 370558001432 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 370558001433 putative deacylase active site [active] 370558001434 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558001435 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 370558001436 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 370558001437 active site 370558001438 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558001439 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 370558001440 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 370558001441 catalytic residues [active] 370558001442 dimer interface [polypeptide binding]; other site 370558001443 oligoendopeptidase F; Region: pepF; TIGR00181 370558001444 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 370558001445 Zn binding site [ion binding]; other site 370558001446 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 370558001447 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 370558001448 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 370558001449 elongation factor Tu; Reviewed; Region: PRK00049 370558001450 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 370558001451 G1 box; other site 370558001452 GEF interaction site [polypeptide binding]; other site 370558001453 GTP/Mg2+ binding site [chemical binding]; other site 370558001454 Switch I region; other site 370558001455 G2 box; other site 370558001456 G3 box; other site 370558001457 Switch II region; other site 370558001458 G4 box; other site 370558001459 G5 box; other site 370558001460 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 370558001461 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 370558001462 Antibiotic Binding Site [chemical binding]; other site 370558001463 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 370558001464 substrate binding site [chemical binding]; other site 370558001465 dimer interface [polypeptide binding]; other site 370558001466 catalytic triad [active] 370558001467 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558001468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558001469 sugar phosphate phosphatase; Provisional; Region: PRK10513 370558001470 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 370558001471 motif II; other site 370558001472 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558001473 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 370558001474 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 370558001475 Zn2+ binding site [ion binding]; other site 370558001476 Mg2+ binding site [ion binding]; other site 370558001477 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 370558001478 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 370558001479 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 370558001480 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 370558001481 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 370558001482 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558001483 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 370558001484 Transcriptional regulators [Transcription]; Region: PurR; COG1609 370558001485 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 370558001486 DNA binding site [nucleotide binding] 370558001487 domain linker motif; other site 370558001488 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 370558001489 putative dimerization interface [polypeptide binding]; other site 370558001490 putative ligand binding site [chemical binding]; other site 370558001491 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 370558001492 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 370558001493 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 370558001494 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 370558001495 active site 370558001496 phosphorylation site [posttranslational modification] 370558001497 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 370558001498 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 370558001499 active pocket/dimerization site; other site 370558001500 active site 370558001501 phosphorylation site [posttranslational modification] 370558001502 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 370558001503 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 370558001504 NADP binding site [chemical binding]; other site 370558001505 homodimer interface [polypeptide binding]; other site 370558001506 active site 370558001507 hypothetical protein; Provisional; Region: PRK09273 370558001508 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 370558001509 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 370558001510 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 370558001511 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 370558001512 substrate binding site [chemical binding]; other site 370558001513 ATP binding site [chemical binding]; other site 370558001514 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 370558001515 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 370558001516 active site 370558001517 intersubunit interface [polypeptide binding]; other site 370558001518 catalytic residue [active] 370558001519 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 370558001520 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 370558001521 motif II; other site 370558001522 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 370558001523 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 370558001524 peptide chain release factor 2; Validated; Region: prfB; PRK00578 370558001525 RF-1 domain; Region: RF-1; cl02875 370558001526 RF-1 domain; Region: RF-1; cl02875 370558001527 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 370558001528 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001529 Walker A/P-loop; other site 370558001530 ATP binding site [chemical binding]; other site 370558001531 Q-loop/lid; other site 370558001532 ABC transporter signature motif; other site 370558001533 Walker B; other site 370558001534 D-loop; other site 370558001535 H-loop/switch region; other site 370558001536 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 370558001537 FtsX-like permease family; Region: FtsX; cl15850 370558001538 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558001539 acetoin reductase; Validated; Region: PRK08643 370558001540 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 370558001541 NAD binding site [chemical binding]; other site 370558001542 homotetramer interface [polypeptide binding]; other site 370558001543 homodimer interface [polypeptide binding]; other site 370558001544 active site 370558001545 substrate binding site [chemical binding]; other site 370558001546 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 370558001547 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 370558001548 active site 370558001549 catalytic site [active] 370558001550 substrate binding site [chemical binding]; other site 370558001551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001553 aspartate aminotransferase; Provisional; Region: PRK05764 370558001554 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 370558001555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558001556 homodimer interface [polypeptide binding]; other site 370558001557 catalytic residue [active] 370558001558 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 370558001559 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 370558001560 putative dimer interface [polypeptide binding]; other site 370558001561 putative anticodon binding site; other site 370558001562 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 370558001563 homodimer interface [polypeptide binding]; other site 370558001564 motif 1; other site 370558001565 motif 2; other site 370558001566 active site 370558001567 motif 3; other site 370558001568 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 370558001569 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 370558001570 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 370558001571 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 370558001572 dimer interface [polypeptide binding]; other site 370558001573 phosphate binding site [ion binding]; other site 370558001574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 370558001575 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 370558001576 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 370558001577 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 370558001578 catalytic residues [active] 370558001579 catalytic nucleophile [active] 370558001580 Presynaptic Site I dimer interface [polypeptide binding]; other site 370558001581 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 370558001582 Synaptic Flat tetramer interface [polypeptide binding]; other site 370558001583 Synaptic Site I dimer interface [polypeptide binding]; other site 370558001584 DNA binding site [nucleotide binding] 370558001585 Recombinase; Region: Recombinase; pfam07508 370558001586 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 370558001587 Short C-terminal domain; Region: SHOCT; cl01373 370558001588 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 370558001589 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 370558001590 non-specific DNA binding site [nucleotide binding]; other site 370558001591 salt bridge; other site 370558001592 sequence-specific DNA binding site [nucleotide binding]; other site 370558001593 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 370558001594 Catalytic site [active] 370558001595 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 370558001596 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 370558001597 non-specific DNA binding site [nucleotide binding]; other site 370558001598 salt bridge; other site 370558001599 sequence-specific DNA binding site [nucleotide binding]; other site 370558001600 phage nucleotide-binding protein; Region: phage_P_loop; TIGR01618 370558001601 AAA domain; Region: AAA_24; pfam13479 370558001602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001603 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 370558001604 nucleotide binding region [chemical binding]; other site 370558001605 ATP-binding site [chemical binding]; other site 370558001606 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 370558001607 Protein of unknown function (DUF669); Region: DUF669; pfam05037 370558001608 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 370558001609 polymerase nucleotide-binding site; other site 370558001610 DNA-binding residues [nucleotide binding]; DNA binding site 370558001611 nucleotide binding site [chemical binding]; other site 370558001612 primase nucleotide-binding site [nucleotide binding]; other site 370558001613 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 370558001614 D5 N terminal like; Region: D5_N; cl07360 370558001615 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 370558001616 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 370558001617 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 370558001618 YopX protein; Region: YopX; cl09859 370558001619 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 370558001620 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 370558001621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001622 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 370558001623 YcfA-like protein; Region: YcfA; cl00752 370558001624 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 370558001625 Phage terminase, small subunit; Region: Terminase_4; cl01525 370558001626 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 370558001627 Phage Terminase; Region: Terminase_1; pfam03354 370558001628 Phage portal protein; Region: Phage_portal; pfam04860 370558001629 Phage-related protein [Function unknown]; Region: COG4695; cl01923 370558001630 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 370558001631 oligomer interface [polypeptide binding]; other site 370558001632 active site residues [active] 370558001633 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 370558001634 Phage capsid family; Region: Phage_capsid; pfam05065 370558001635 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 370558001636 oligomerization interface [polypeptide binding]; other site 370558001637 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 370558001638 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 370558001639 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 370558001640 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 370558001641 Phage-related protein [Function unknown]; Region: COG4722; cl15832 370558001642 Phage tail protein; Region: Sipho_tail; pfam05709 370558001643 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 370558001644 Hyaluronidase protein (HylP); Region: Hyaluronidase_1; pfam07212 370558001645 gp58-like protein; Region: Gp58; pfam07902 370558001646 Protein of unknown function (DUF1617); Region: DUF1617; pfam07761 370558001647 Bacteriophage holin; Region: Phage_holin_1; cl02344 370558001648 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 370558001649 NlpC/P60 family; Region: NLPC_P60; cl11438 370558001650 Bacterial SH3 domain; Region: SH3_3; cl02551 370558001651 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 370558001652 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558001653 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 370558001654 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 370558001655 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 370558001656 Peptidase family C69; Region: Peptidase_C69; pfam03577 370558001657 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 370558001658 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 370558001659 metal binding site [ion binding]; metal-binding site 370558001660 YodA lipocalin-like domain; Region: YodA; cl01365 370558001661 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 370558001662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558001663 DNA-binding site [nucleotide binding]; DNA binding site 370558001664 UTRA domain; Region: UTRA; cl01230 370558001665 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 370558001666 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 370558001667 dimer interface [polypeptide binding]; other site 370558001668 active site 370558001669 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 370558001670 putative active site [active] 370558001671 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 370558001672 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 370558001673 DHH family; Region: DHH; pfam01368 370558001674 DHHA1 domain; Region: DHHA1; pfam02272 370558001675 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 370558001676 Chorismate mutase type II; Region: CM_2; cl00693 370558001677 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 370558001678 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 370558001679 Cl- selectivity filter; other site 370558001680 Cl- binding residues [ion binding]; other site 370558001681 pore gating glutamate residue; other site 370558001682 dimer interface [polypeptide binding]; other site 370558001683 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 370558001684 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 370558001685 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 370558001686 motif II; other site 370558001687 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 370558001688 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 370558001689 Mg2+ binding site [ion binding]; other site 370558001690 G-X-G motif; other site 370558001691 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 370558001692 anchoring element; other site 370558001693 dimer interface [polypeptide binding]; other site 370558001694 ATP binding site [chemical binding]; other site 370558001695 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 370558001696 active site 370558001697 putative metal-binding site [ion binding]; other site 370558001698 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 370558001699 septation ring formation regulator EzrA; Provisional; Region: PRK04778 370558001700 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 370558001701 enolase; Provisional; Region: eno; PRK00077 370558001702 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 370558001703 dimer interface [polypeptide binding]; other site 370558001704 metal binding site [ion binding]; metal-binding site 370558001705 substrate binding pocket [chemical binding]; other site 370558001706 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 370558001707 Transposase; Region: DEDD_Tnp_IS110; pfam01548 370558001708 MAEBL; Provisional; Region: PTZ00121 370558001709 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 370558001710 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 370558001711 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 370558001712 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 370558001713 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 370558001714 bacteriocin protoxin, streptolysin S family; Region: streptolysinS; TIGR03602 370558001715 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 370558001716 putative FMN binding site [chemical binding]; other site 370558001717 NADPH bind site [chemical binding]; other site 370558001718 bacteriocin biosynthesis cyclodehydratase, SagC family; Region: cyclo_dehy_ocin; TIGR03603 370558001719 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 370558001720 YcaO-like family; Region: YcaO; pfam02624 370558001721 CAAX protease self-immunity; Region: Abi; cl00558 370558001722 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 370558001723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001724 Walker A/P-loop; other site 370558001725 ATP binding site [chemical binding]; other site 370558001726 Q-loop/lid; other site 370558001727 ABC transporter signature motif; other site 370558001728 Walker B; other site 370558001729 D-loop; other site 370558001730 H-loop/switch region; other site 370558001731 ABC-2 type transporter; Region: ABC2_membrane; cl11417 370558001732 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 370558001733 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 370558001734 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 370558001735 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 370558001736 generic binding surface II; other site 370558001737 generic binding surface I; other site 370558001738 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 370558001739 generic binding surface II; other site 370558001740 generic binding surface I; other site 370558001741 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 370558001742 putative catalytic site [active] 370558001743 putative metal binding site [ion binding]; other site 370558001744 putative phosphate binding site [ion binding]; other site 370558001745 QueT transporter; Region: QueT; cl01932 370558001746 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 370558001747 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 370558001748 nucleotide binding pocket [chemical binding]; other site 370558001749 K-X-D-G motif; other site 370558001750 catalytic site [active] 370558001751 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 370558001752 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 370558001753 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 370558001754 Dimer interface [polypeptide binding]; other site 370558001755 BRCT sequence motif; other site 370558001756 putative lipid kinase; Reviewed; Region: PRK13055 370558001757 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 370558001758 ATP synthase subunit C; Region: ATP-synt_C; cl00466 370558001759 ATP synthase A chain; Region: ATP-synt_A; cl00413 370558001760 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 370558001761 Plant ATP synthase F0; Region: YMF19; cl07975 370558001762 Plant ATP synthase F0; Region: YMF19; cl07975 370558001763 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 370558001764 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 370558001765 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 370558001766 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 370558001767 beta subunit interaction interface [polypeptide binding]; other site 370558001768 Walker A motif; other site 370558001769 ATP binding site [chemical binding]; other site 370558001770 Walker B motif; other site 370558001771 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 370558001772 ATP synthase; Region: ATP-synt; cl00365 370558001773 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 370558001774 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 370558001775 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 370558001776 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 370558001777 alpha subunit interaction interface [polypeptide binding]; other site 370558001778 Walker A motif; other site 370558001779 ATP binding site [chemical binding]; other site 370558001780 Walker B motif; other site 370558001781 inhibitor binding site; inhibition site 370558001782 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 370558001783 ATP synthase CF1 epsilon subunit; Region: atpE; CHL00063 370558001784 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 370558001785 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 370558001786 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 370558001787 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 370558001788 hinge; other site 370558001789 active site 370558001790 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 370558001791 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 370558001792 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 370558001793 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 370558001794 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 370558001795 dimer interface [polypeptide binding]; other site 370558001796 motif 1; other site 370558001797 active site 370558001798 motif 2; other site 370558001799 motif 3; other site 370558001800 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 370558001801 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 370558001802 putative tRNA-binding site [nucleotide binding]; other site 370558001803 B3/4 domain; Region: B3_4; cl11458 370558001804 tRNA synthetase B5 domain; Region: B5; cl08394 370558001805 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 370558001806 dimer interface [polypeptide binding]; other site 370558001807 motif 1; other site 370558001808 motif 3; other site 370558001809 motif 2; other site 370558001810 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 370558001811 OsmC-like protein; Region: OsmC; cl00767 370558001812 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 370558001813 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 370558001814 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558001815 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 370558001816 Walker A/P-loop; other site 370558001817 ATP binding site [chemical binding]; other site 370558001818 Q-loop/lid; other site 370558001819 ABC transporter signature motif; other site 370558001820 Walker B; other site 370558001821 D-loop; other site 370558001822 H-loop/switch region; other site 370558001823 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 370558001824 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 370558001825 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 370558001826 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 370558001827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558001828 Family description; Region: UvrD_C_2; cl15862 370558001829 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 370558001830 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 370558001831 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558001832 substrate binding pocket [chemical binding]; other site 370558001833 membrane-bound complex binding site; other site 370558001834 hinge residues; other site 370558001835 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 370558001836 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 370558001837 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 370558001838 DNA primase; Validated; Region: dnaG; PRK05667 370558001839 CHC2 zinc finger; Region: zf-CHC2; cl15369 370558001840 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 370558001841 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 370558001842 active site 370558001843 metal binding site [ion binding]; metal-binding site 370558001844 interdomain interaction site; other site 370558001845 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 370558001846 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 370558001847 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 370558001848 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 370558001849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 370558001850 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 370558001851 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 370558001852 DNA binding residues [nucleotide binding] 370558001853 Domain of unknown function DUF59; Region: DUF59; cl00941 370558001854 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 370558001855 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 370558001856 NADP binding site [chemical binding]; other site 370558001857 active site 370558001858 putative substrate binding site [chemical binding]; other site 370558001859 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 370558001860 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 370558001861 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 370558001862 Probable Catalytic site; other site 370558001863 ABC-2 type transporter; Region: ABC2_membrane; cl11417 370558001864 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 370558001865 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 370558001866 Walker A/P-loop; other site 370558001867 ATP binding site [chemical binding]; other site 370558001868 Q-loop/lid; other site 370558001869 ABC transporter signature motif; other site 370558001870 Walker B; other site 370558001871 D-loop; other site 370558001872 H-loop/switch region; other site 370558001873 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 370558001874 active site 370558001875 Rhamnan synthesis protein F; Region: RgpF; cl01529 370558001876 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 370558001877 Sulfatase; Region: Sulfatase; cl10460 370558001878 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 370558001879 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 370558001880 Ligand binding site; other site 370558001881 Putative Catalytic site; other site 370558001882 DXD motif; other site 370558001883 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 370558001884 MatE; Region: MatE; cl10513 370558001885 Predicted membrane protein [Function unknown]; Region: COG4713 370558001886 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 370558001887 peptidase T; Region: peptidase-T; TIGR01882 370558001888 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 370558001889 metal binding site [ion binding]; metal-binding site 370558001890 dimer interface [polypeptide binding]; other site 370558001891 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 370558001892 cytidylate kinase; Provisional; Region: cmk; PRK00023 370558001893 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 370558001894 CMP-binding site; other site 370558001895 The sites determining sugar specificity; other site 370558001896 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 370558001897 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 370558001898 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 370558001899 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 370558001900 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 370558001901 23S rRNA binding site [nucleotide binding]; other site 370558001902 L21 binding site [polypeptide binding]; other site 370558001903 L13 binding site [polypeptide binding]; other site 370558001904 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 370558001905 Sulfatase; Region: Sulfatase; cl10460 370558001906 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 370558001907 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 370558001908 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 370558001909 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 370558001910 active site 370558001911 catalytic residue [active] 370558001912 dimer interface [polypeptide binding]; other site 370558001913 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 370558001914 Tetramer interface [polypeptide binding]; other site 370558001915 active site 370558001916 FMN-binding site [chemical binding]; other site 370558001917 Protein of unknown function (DUF964); Region: DUF964; cl01483 370558001918 glutathione reductase; Validated; Region: PRK06116 370558001919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558001920 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 370558001921 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 370558001922 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558001923 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558001924 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 370558001925 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 370558001926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 370558001927 catalytic residue [active] 370558001928 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 370558001929 THUMP domain; Region: THUMP; cl12076 370558001930 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 370558001931 Ligand Binding Site [chemical binding]; other site 370558001932 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 370558001933 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 370558001934 putative active site [active] 370558001935 putative metal binding site [ion binding]; other site 370558001936 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 370558001937 Protein of unknown function (DUF464); Region: DUF464; cl01080 370558001938 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 370558001939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 370558001940 Helix-turn-helix domains; Region: HTH; cl00088 370558001941 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 370558001942 dimerization interface [polypeptide binding]; other site 370558001943 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 370558001944 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 370558001945 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 370558001946 RNA binding surface [nucleotide binding]; other site 370558001947 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 370558001948 active site 370558001949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558001950 active site 370558001951 uracil transporter; Provisional; Region: PRK10720 370558001952 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 370558001953 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 370558001954 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 370558001955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558001956 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 370558001957 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 370558001958 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 370558001959 catalytic site [active] 370558001960 subunit interface [polypeptide binding]; other site 370558001961 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 370558001962 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 370558001963 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558001964 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 370558001965 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 370558001966 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558001967 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 370558001968 IMP binding site; other site 370558001969 dimer interface [polypeptide binding]; other site 370558001970 interdomain contacts; other site 370558001971 partial ornithine binding site; other site 370558001972 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 370558001973 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 370558001974 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558001975 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 370558001976 Walker A/P-loop; other site 370558001977 ATP binding site [chemical binding]; other site 370558001978 Q-loop/lid; other site 370558001979 ABC transporter signature motif; other site 370558001980 Walker B; other site 370558001981 D-loop; other site 370558001982 H-loop/switch region; other site 370558001983 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 370558001984 FtsX-like permease family; Region: FtsX; cl15850 370558001985 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 370558001986 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 370558001987 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 370558001988 putative active site [active] 370558001989 catalytic site [active] 370558001990 putative metal binding site [ion binding]; other site 370558001991 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 370558001992 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 370558001993 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 370558001994 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 370558001995 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 370558001996 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 370558001997 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 370558001998 Cation efflux family; Region: Cation_efflux; cl00316 370558001999 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 370558002000 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 370558002001 RimM N-terminal domain; Region: RimM; pfam01782 370558002002 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 370558002003 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 370558002004 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 370558002005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002006 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558002007 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558002008 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 370558002009 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 370558002010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002011 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 370558002012 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 370558002013 Helix-turn-helix domains; Region: HTH; cl00088 370558002014 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 370558002015 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 370558002016 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 370558002017 putative substrate binding site [chemical binding]; other site 370558002018 putative ATP binding site [chemical binding]; other site 370558002019 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 370558002020 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 370558002021 active site 370558002022 phosphorylation site [posttranslational modification] 370558002023 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 370558002024 P-loop; other site 370558002025 active site 370558002026 phosphorylation site [posttranslational modification] 370558002027 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558002028 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 370558002029 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 370558002030 Integrase core domain; Region: rve_3; cl15866 370558002031 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558002032 Mac 1; Region: Mac-1; pfam09028 370558002033 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 370558002034 multimer interface [polypeptide binding]; other site 370558002035 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 370558002036 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 370558002037 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 370558002038 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 370558002039 active site 370558002040 NTP binding site [chemical binding]; other site 370558002041 metal binding triad [ion binding]; metal-binding site 370558002042 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 370558002043 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558002044 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 370558002045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002046 Walker A/P-loop; other site 370558002047 ATP binding site [chemical binding]; other site 370558002048 Q-loop/lid; other site 370558002049 ABC transporter signature motif; other site 370558002050 Walker B; other site 370558002051 D-loop; other site 370558002052 H-loop/switch region; other site 370558002053 ABC transporter; Region: ABC_tran_2; pfam12848 370558002054 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 370558002055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002056 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 370558002057 active site 370558002058 catalytic residues [active] 370558002059 metal binding site [ion binding]; metal-binding site 370558002060 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 370558002061 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 370558002062 putative active site [active] 370558002063 putative metal binding site [ion binding]; other site 370558002064 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 370558002065 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 370558002066 synthetase active site [active] 370558002067 NTP binding site [chemical binding]; other site 370558002068 metal binding site [ion binding]; metal-binding site 370558002069 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558002070 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 370558002071 active site 370558002072 phosphorylation site [posttranslational modification] 370558002073 intermolecular recognition site; other site 370558002074 dimerization interface [polypeptide binding]; other site 370558002075 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 370558002076 DNA binding site [nucleotide binding] 370558002077 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 370558002078 dimer interface [polypeptide binding]; other site 370558002079 phosphorylation site [posttranslational modification] 370558002080 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 370558002081 ATP binding site [chemical binding]; other site 370558002082 Mg2+ binding site [ion binding]; other site 370558002083 G-X-G motif; other site 370558002084 mevalonate kinase; Region: mevalon_kin; TIGR00549 370558002085 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 370558002086 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 370558002087 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 370558002088 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 370558002089 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 370558002090 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 370558002091 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 370558002092 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 370558002093 homotetramer interface [polypeptide binding]; other site 370558002094 FMN binding site [chemical binding]; other site 370558002095 homodimer contacts [polypeptide binding]; other site 370558002096 putative active site [active] 370558002097 putative substrate binding site [chemical binding]; other site 370558002098 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558002099 Transposase domain (DUF772); Region: DUF772; cl15789 370558002100 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 370558002101 homodimer interface [polypeptide binding]; other site 370558002102 NAD binding site [chemical binding]; other site 370558002103 catalytic residues [active] 370558002104 substrate binding pocket [chemical binding]; other site 370558002105 flexible flap; other site 370558002106 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 370558002107 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 370558002108 dimer interface [polypeptide binding]; other site 370558002109 active site 370558002110 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 370558002111 dimerization interface [polypeptide binding]; other site 370558002112 active site 370558002113 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 370558002114 folate binding site [chemical binding]; other site 370558002115 NADP+ binding site [chemical binding]; other site 370558002116 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 370558002117 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 370558002118 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 370558002119 Walker A motif; other site 370558002120 ATP binding site [chemical binding]; other site 370558002121 Walker B motif; other site 370558002122 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 370558002123 Predicted GTPase [General function prediction only]; Region: COG0218 370558002124 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 370558002125 G1 box; other site 370558002126 GTP/Mg2+ binding site [chemical binding]; other site 370558002127 Switch I region; other site 370558002128 G2 box; other site 370558002129 G3 box; other site 370558002130 Switch II region; other site 370558002131 G4 box; other site 370558002132 G5 box; other site 370558002133 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 370558002134 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 370558002135 Walker A motif; other site 370558002136 ATP binding site [chemical binding]; other site 370558002137 Walker B motif; other site 370558002138 arginine finger; other site 370558002139 UvrB/uvrC motif; Region: UVR; pfam02151 370558002140 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 370558002141 Walker A motif; other site 370558002142 ATP binding site [chemical binding]; other site 370558002143 Walker B motif; other site 370558002144 arginine finger; other site 370558002145 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 370558002146 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 370558002147 tetramer (dimer of dimers) interface [polypeptide binding]; other site 370558002148 active site 370558002149 dimer interface [polypeptide binding]; other site 370558002150 Sulfatase; Region: Sulfatase; cl10460 370558002151 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 370558002152 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 370558002153 ArsC family; Region: ArsC; pfam03960 370558002154 catalytic residues [active] 370558002155 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558002156 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558002157 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 370558002158 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 370558002159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 370558002160 Helix-turn-helix domains; Region: HTH; cl00088 370558002161 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 370558002162 dimerization interface [polypeptide binding]; other site 370558002163 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 370558002164 active site 370558002165 dimer interface [polypeptide binding]; other site 370558002166 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 370558002167 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558002168 active site 370558002169 amidase; Provisional; Region: PRK06529 370558002170 Amidase; Region: Amidase; cl11426 370558002171 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 370558002172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558002173 substrate binding pocket [chemical binding]; other site 370558002174 membrane-bound complex binding site; other site 370558002175 hinge residues; other site 370558002176 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 370558002177 dimer interface [polypeptide binding]; other site 370558002178 conserved gate region; other site 370558002179 putative PBP binding loops; other site 370558002180 ABC-ATPase subunit interface; other site 370558002181 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 370558002182 ligand binding site [chemical binding]; other site 370558002183 active site 370558002184 UGI interface [polypeptide binding]; other site 370558002185 catalytic site [active] 370558002186 dihydroorotase; Validated; Region: pyrC; PRK09357 370558002187 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 370558002188 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 370558002189 active site 370558002190 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 370558002191 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 370558002192 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; cl00075 370558002193 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 370558002194 anchoring element; other site 370558002195 dimer interface [polypeptide binding]; other site 370558002196 ATP binding site [chemical binding]; other site 370558002197 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 370558002198 active site 370558002199 putative metal-binding site [ion binding]; other site 370558002200 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 370558002201 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 370558002202 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 370558002203 CAP-like domain; other site 370558002204 active site 370558002205 primary dimer interface [polypeptide binding]; other site 370558002206 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002207 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 370558002208 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 370558002209 homodimer interface [polypeptide binding]; other site 370558002210 substrate-cofactor binding pocket; other site 370558002211 catalytic residue [active] 370558002212 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 370558002213 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 370558002214 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 370558002215 RNA binding site [nucleotide binding]; other site 370558002216 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 370558002217 RNA binding site [nucleotide binding]; other site 370558002218 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 370558002219 RNA binding site [nucleotide binding]; other site 370558002220 S1_RPS1_repeat_hs4: 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_hs4; cd05692 370558002221 RNA binding site [nucleotide binding]; other site 370558002222 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 370558002223 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 370558002224 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 370558002225 active site residue [active] 370558002226 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 370558002227 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 370558002228 dimer interface [polypeptide binding]; other site 370558002229 substrate binding pocket (H-site) [chemical binding]; other site 370558002230 N-terminal domain interface [polypeptide binding]; other site 370558002231 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558002232 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558002233 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558002234 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 370558002235 gating phenylalanine in ion channel; other site 370558002236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002237 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 370558002238 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 370558002239 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 370558002240 HflX GTPase family; Region: HflX; cd01878 370558002241 G1 box; other site 370558002242 GTP/Mg2+ binding site [chemical binding]; other site 370558002243 Switch I region; other site 370558002244 G2 box; other site 370558002245 G3 box; other site 370558002246 Switch II region; other site 370558002247 G4 box; other site 370558002248 G5 box; other site 370558002249 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 370558002250 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558002251 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 370558002252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002253 NAD(P) binding site [chemical binding]; other site 370558002254 active site 370558002255 DHH family; Region: DHH; pfam01368 370558002256 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 370558002257 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 370558002258 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 370558002259 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558002260 active site 370558002261 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 370558002262 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 370558002263 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 370558002264 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 370558002265 minor groove reading motif; other site 370558002266 helix-hairpin-helix signature motif; other site 370558002267 substrate binding pocket [chemical binding]; other site 370558002268 active site 370558002269 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 370558002270 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002271 Uncharacterized conserved protein [Function unknown]; Region: COG0327 370558002272 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 370558002273 FAD dependent oxidoreductase; Region: DAO; pfam01266 370558002274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002275 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 370558002276 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 370558002277 substrate binding site; other site 370558002278 tetramer interface; other site 370558002279 Cupin domain; Region: Cupin_2; cl09118 370558002280 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 370558002281 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 370558002282 NAD binding site [chemical binding]; other site 370558002283 substrate binding site [chemical binding]; other site 370558002284 homodimer interface [polypeptide binding]; other site 370558002285 active site 370558002286 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 370558002287 Int/Topo IB signature motif; other site 370558002288 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 370558002289 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 370558002290 non-specific DNA binding site [nucleotide binding]; other site 370558002291 salt bridge; other site 370558002292 sequence-specific DNA binding site [nucleotide binding]; other site 370558002293 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 370558002294 Catalytic site [active] 370558002295 AntA/AntB antirepressor; Region: AntA; cl01430 370558002296 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 370558002297 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 370558002298 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 370558002299 RecT family; Region: RecT; cl04285 370558002300 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 370558002301 YopX protein; Region: YopX; cl09859 370558002302 Protein of unknown function (DUF1642); Region: DUF1642; pfam07852 370558002303 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 370558002304 Terminase small subunit; Region: Terminase_2; cl01513 370558002305 Phage terminase large subunit; Region: Terminase_3; cl12054 370558002306 Terminase-like family; Region: Terminase_6; pfam03237 370558002307 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 370558002308 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 370558002309 NAD+--asparagine ADP-ribosyltransferase [Signal transduction mechanisms]; Region: COG5585 370558002310 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 370558002311 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 370558002312 active site 370558002313 conformational flexibility of ligand binding pocket; other site 370558002314 ADP-ribosylating toxin turn-turn motif; other site 370558002315 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 370558002316 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 370558002317 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 370558002318 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 370558002319 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 370558002320 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 370558002321 Phage major tail protein 2; Region: Phage_tail_2; cl11463 370558002322 Phage protein; Region: DUF3647; cl10335 370558002323 tape measure domain; Region: tape_meas_nterm; TIGR02675 370558002324 Phage-related protein [Function unknown]; Region: COG5412 370558002325 Phage-related protein [Function unknown]; Region: COG4722; cl15832 370558002326 Phage tail protein; Region: Sipho_tail; pfam05709 370558002327 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 370558002328 chromosome segregation protein; Provisional; Region: PRK03918 370558002329 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 370558002330 Hyaluronidase protein (HylP); Region: Hyaluronidase_1; pfam07212 370558002331 gp58-like protein; Region: Gp58; pfam07902 370558002332 Protein of unknown function (DUF1366); Region: DUF1366; pfam07104 370558002333 NlpC/P60 family; Region: NLPC_P60; cl11438 370558002334 Cpl-1 lysin (also known as Cpl-9 lysozyme / muramidase) is a bacterial cell wall endolysin encoded by the pneumococcal bacteriophage Cp-1, which cleaves the glycosidic N-acetylmuramoyl-(beta1,4)-N-acetylglucosamine bonds of the pneumococcal glycan chain; Region: GH25_Cpl1-like; cd06415 370558002335 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 370558002336 active site 370558002337 Bacterial SH3 domain; Region: SH3_3; cl02551 370558002338 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 370558002339 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558002340 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 370558002341 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558002342 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 370558002343 putative active site [active] 370558002344 nucleotide binding site [chemical binding]; other site 370558002345 nudix motif; other site 370558002346 putative metal binding site [ion binding]; other site 370558002347 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 370558002348 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 370558002349 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 370558002350 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 370558002351 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 370558002352 Domain of unknown function (DUF814); Region: DUF814; pfam05670 370558002353 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 370558002354 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 370558002355 zinc binding site [ion binding]; other site 370558002356 putative ligand binding site [chemical binding]; other site 370558002357 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 370558002358 TM-ABC transporter signature motif; other site 370558002359 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 370558002360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002361 Walker A/P-loop; other site 370558002362 ATP binding site [chemical binding]; other site 370558002363 Q-loop/lid; other site 370558002364 ABC transporter signature motif; other site 370558002365 Walker B; other site 370558002366 D-loop; other site 370558002367 H-loop/switch region; other site 370558002368 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 370558002369 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558002370 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 370558002371 Predicted esterase [General function prediction only]; Region: COG0627 370558002372 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 370558002373 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 370558002374 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 370558002375 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 370558002376 ABC transporter; Region: ABC_tran_2; pfam12848 370558002377 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 370558002378 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 370558002379 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 370558002380 tetramer interface [polypeptide binding]; other site 370558002381 TPP-binding site [chemical binding]; other site 370558002382 heterodimer interface [polypeptide binding]; other site 370558002383 phosphorylation loop region [posttranslational modification] 370558002384 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 370558002385 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 370558002386 alpha subunit interface [polypeptide binding]; other site 370558002387 TPP binding site [chemical binding]; other site 370558002388 heterodimer interface [polypeptide binding]; other site 370558002389 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 370558002390 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 370558002391 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 370558002392 E3 interaction surface; other site 370558002393 lipoyl attachment site [posttranslational modification]; other site 370558002394 e3 binding domain; Region: E3_binding; pfam02817 370558002395 e3 binding domain; Region: E3_binding; pfam02817 370558002396 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 370558002397 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 370558002398 E3 interaction surface; other site 370558002399 lipoyl attachment site [posttranslational modification]; other site 370558002400 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 370558002401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558002402 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 370558002403 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 370558002404 substrate binding site [chemical binding]; other site 370558002405 catalytic residues [active] 370558002406 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 370558002407 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 370558002408 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 370558002409 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 370558002410 catalytic triad [active] 370558002411 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 370558002412 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558002413 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 370558002414 Uncharacterized conserved protein [Function unknown]; Region: COG1624 370558002415 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 370558002416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 370558002417 YbbR-like protein; Region: YbbR; pfam07949 370558002418 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 370558002419 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 370558002420 active site 370558002421 substrate binding site [chemical binding]; other site 370558002422 metal binding site [ion binding]; metal-binding site 370558002423 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 370558002424 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 370558002425 FeS/SAM binding site; other site 370558002426 HemN C-terminal domain; Region: HemN_C; pfam06969 370558002427 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 370558002428 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 370558002429 active site 370558002430 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 370558002431 active site 2 [active] 370558002432 active site 1 [active] 370558002433 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 370558002434 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 370558002435 active site 370558002436 motif I; other site 370558002437 motif II; other site 370558002438 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 370558002439 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 370558002440 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 370558002441 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 370558002442 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 370558002443 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 370558002444 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 370558002445 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09758 370558002446 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 370558002447 multimer interface [polypeptide binding]; other site 370558002448 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 370558002449 active site 370558002450 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558002451 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558002452 GTP-binding protein LepA; Provisional; Region: PRK05433 370558002453 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 370558002454 G1 box; other site 370558002455 putative GEF interaction site [polypeptide binding]; other site 370558002456 GTP/Mg2+ binding site [chemical binding]; other site 370558002457 Switch I region; other site 370558002458 G2 box; other site 370558002459 G3 box; other site 370558002460 Switch II region; other site 370558002461 G4 box; other site 370558002462 G5 box; other site 370558002463 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 370558002464 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 370558002465 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 370558002466 Gram positive anchor; Region: Gram_pos_anchor; cl15427 370558002467 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 370558002468 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 370558002469 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 370558002470 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 370558002471 active pocket/dimerization site; other site 370558002472 active site 370558002473 phosphorylation site [posttranslational modification] 370558002474 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 370558002475 active site 370558002476 phosphorylation site [posttranslational modification] 370558002477 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 370558002478 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 370558002479 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 370558002480 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 370558002481 Histidine kinase; Region: His_kinase; pfam06580 370558002482 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 370558002483 ATP binding site [chemical binding]; other site 370558002484 Mg2+ binding site [ion binding]; other site 370558002485 G-X-G motif; other site 370558002486 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 370558002487 Response regulator receiver domain; Region: Response_reg; pfam00072 370558002488 active site 370558002489 phosphorylation site [posttranslational modification] 370558002490 intermolecular recognition site; other site 370558002491 dimerization interface [polypeptide binding]; other site 370558002492 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 370558002493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 370558002494 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 370558002495 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 370558002496 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 370558002497 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 370558002498 NAD(P) binding site [chemical binding]; other site 370558002499 catalytic residues [active] 370558002500 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 370558002501 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 370558002502 GIY-YIG motif/motif A; other site 370558002503 active site 370558002504 catalytic site [active] 370558002505 putative DNA binding site [nucleotide binding]; other site 370558002506 metal binding site [ion binding]; metal-binding site 370558002507 UvrB/uvrC motif; Region: UVR; pfam02151 370558002508 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 370558002509 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 370558002510 dimer interface [polypeptide binding]; other site 370558002511 FMN binding site [chemical binding]; other site 370558002512 dipeptidase PepV; Reviewed; Region: PRK07318 370558002513 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 370558002514 active site 370558002515 metal binding site [ion binding]; metal-binding site 370558002516 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 370558002517 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 370558002518 trmE is a tRNA modification GTPase; Region: trmE; cd04164 370558002519 G1 box; other site 370558002520 GTP/Mg2+ binding site [chemical binding]; other site 370558002521 Switch I region; other site 370558002522 G2 box; other site 370558002523 Switch II region; other site 370558002524 G3 box; other site 370558002525 G4 box; other site 370558002526 G5 box; other site 370558002527 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 370558002528 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 370558002529 23S rRNA interface [nucleotide binding]; other site 370558002530 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 370558002531 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 370558002532 core dimer interface [polypeptide binding]; other site 370558002533 L10 interface [polypeptide binding]; other site 370558002534 L11 interface [polypeptide binding]; other site 370558002535 putative EF-Tu interaction site [polypeptide binding]; other site 370558002536 putative EF-G interaction site [polypeptide binding]; other site 370558002537 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 370558002538 cofactor binding site; other site 370558002539 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 370558002540 Lantibiotic streptin immunity protein; Region: Streptin-Immun; pfam11083 370558002541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558002542 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 370558002543 active site 370558002544 phosphorylation site [posttranslational modification] 370558002545 intermolecular recognition site; other site 370558002546 dimerization interface [polypeptide binding]; other site 370558002547 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 370558002548 DNA binding site [nucleotide binding] 370558002549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 370558002550 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 370558002551 ATP binding site [chemical binding]; other site 370558002552 Mg2+ binding site [ion binding]; other site 370558002553 G-X-G motif; other site 370558002554 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 370558002555 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558002556 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 370558002557 Walker A/P-loop; other site 370558002558 ATP binding site [chemical binding]; other site 370558002559 Q-loop/lid; other site 370558002560 ABC transporter signature motif; other site 370558002561 Walker B; other site 370558002562 D-loop; other site 370558002563 H-loop/switch region; other site 370558002564 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 370558002565 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 370558002566 active site 370558002567 zinc binding site [ion binding]; other site 370558002568 Lantibiotic dehydratase, N terminus; Region: Lant_dehyd_N; pfam04737 370558002569 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 370558002570 SpaB C-terminal domain; Region: SpaB_C; cl14828 370558002571 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 370558002572 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 370558002573 Walker A/P-loop; other site 370558002574 ATP binding site [chemical binding]; other site 370558002575 Q-loop/lid; other site 370558002576 ABC transporter signature motif; other site 370558002577 Walker B; other site 370558002578 D-loop; other site 370558002579 H-loop/switch region; other site 370558002580 ABC-2 type transporter; Region: ABC2_membrane; cl11417 370558002581 ABC-2 type transporter; Region: ABC2_membrane; cl11417 370558002582 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 370558002583 non-specific DNA binding site [nucleotide binding]; other site 370558002584 salt bridge; other site 370558002585 sequence-specific DNA binding site [nucleotide binding]; other site 370558002586 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 370558002587 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 370558002588 DNA binding site [nucleotide binding] 370558002589 Int/Topo IB signature motif; other site 370558002590 active site 370558002591 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 370558002592 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558002593 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 370558002594 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 370558002595 putative active site [active] 370558002596 putative metal binding site [ion binding]; other site 370558002597 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 370558002598 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558002599 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 370558002600 homodecamer interface [polypeptide binding]; other site 370558002601 GTP cyclohydrolase I; Provisional; Region: PLN03044 370558002602 active site 370558002603 putative catalytic site residues [active] 370558002604 zinc binding site [ion binding]; other site 370558002605 GTP-CH-I/GFRP interaction surface; other site 370558002606 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 370558002607 dihydropteroate synthase; Region: DHPS; TIGR01496 370558002608 substrate binding pocket [chemical binding]; other site 370558002609 dimer interface [polypeptide binding]; other site 370558002610 inhibitor binding site; inhibition site 370558002611 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 370558002612 homooctamer interface [polypeptide binding]; other site 370558002613 active site 370558002614 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 370558002615 catalytic center binding site [active] 370558002616 ATP binding site [chemical binding]; other site 370558002617 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 370558002618 FAD binding domain; Region: FAD_binding_4; pfam01565 370558002619 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 370558002620 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 370558002621 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 370558002622 Walker A/P-loop; other site 370558002623 ATP binding site [chemical binding]; other site 370558002624 Q-loop/lid; other site 370558002625 ABC transporter signature motif; other site 370558002626 Walker B; other site 370558002627 D-loop; other site 370558002628 H-loop/switch region; other site 370558002629 TOBE domain; Region: TOBE_2; cl01440 370558002630 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 370558002631 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 370558002632 dimer interface [polypeptide binding]; other site 370558002633 conserved gate region; other site 370558002634 putative PBP binding loops; other site 370558002635 ABC-ATPase subunit interface; other site 370558002636 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 370558002637 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 370558002638 dimer interface [polypeptide binding]; other site 370558002639 conserved gate region; other site 370558002640 putative PBP binding loops; other site 370558002641 ABC-ATPase subunit interface; other site 370558002642 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 370558002643 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 370558002644 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 370558002645 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 370558002646 active site 370558002647 phosphorylation site [posttranslational modification] 370558002648 intermolecular recognition site; other site 370558002649 dimerization interface [polypeptide binding]; other site 370558002650 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 370558002651 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 370558002652 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 370558002653 Malic enzyme, N-terminal domain; Region: malic; pfam00390 370558002654 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 370558002655 putative NAD(P) binding site [chemical binding]; other site 370558002656 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 370558002657 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 370558002658 catalytic Zn binding site [ion binding]; other site 370558002659 structural Zn binding site [ion binding]; other site 370558002660 NAD(P) binding site [chemical binding]; other site 370558002661 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558002662 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 370558002663 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 370558002664 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 370558002665 Cl- selectivity filter; other site 370558002666 Cl- binding residues [ion binding]; other site 370558002667 pore gating glutamate residue; other site 370558002668 dimer interface [polypeptide binding]; other site 370558002669 H+/Cl- coupling transport residue; other site 370558002670 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 370558002671 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 370558002672 active site 370558002673 catalytic triad [active] 370558002674 oxyanion hole [active] 370558002675 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 370558002676 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 370558002677 hypothetical protein; Reviewed; Region: PRK00024 370558002678 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 370558002679 MPN+ (JAMM) motif; other site 370558002680 Zinc-binding site [ion binding]; other site 370558002681 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 370558002682 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 370558002683 catalytic triad [active] 370558002684 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 370558002685 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 370558002686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002687 Putative amino acid metabolism; Region: DUF1831; pfam08866 370558002688 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 370558002689 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 370558002690 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 370558002691 catalytic residue [active] 370558002692 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 370558002693 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 370558002694 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558002695 active site 370558002696 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 370558002697 putative active site [active] 370558002698 putative metal binding residues [ion binding]; other site 370558002699 signature motif; other site 370558002700 putative triphosphate binding site [ion binding]; other site 370558002701 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 370558002702 synthetase active site [active] 370558002703 NTP binding site [chemical binding]; other site 370558002704 metal binding site [ion binding]; metal-binding site 370558002705 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 370558002706 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 370558002707 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 370558002708 active site 370558002709 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 370558002710 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 370558002711 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 370558002712 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 370558002713 putative NAD(P) binding site [chemical binding]; other site 370558002714 homotetramer interface [polypeptide binding]; other site 370558002715 homodimer interface [polypeptide binding]; other site 370558002716 active site 370558002717 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 370558002718 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002719 Walker A/P-loop; other site 370558002720 ATP binding site [chemical binding]; other site 370558002721 Q-loop/lid; other site 370558002722 ABC transporter signature motif; other site 370558002723 Walker B; other site 370558002724 D-loop; other site 370558002725 H-loop/switch region; other site 370558002726 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 370558002727 dimer interface [polypeptide binding]; other site 370558002728 conserved gate region; other site 370558002729 ABC-ATPase subunit interface; other site 370558002730 NMT1-like family; Region: NMT1_2; cl15260 370558002731 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 370558002732 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 370558002733 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 370558002734 active site 370558002735 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 370558002736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558002737 active site 370558002738 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 370558002739 xanthine permease; Region: pbuX; TIGR03173 370558002740 ApbE family; Region: ApbE; cl00643 370558002741 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 370558002742 active site 1 [active] 370558002743 dimer interface [polypeptide binding]; other site 370558002744 hexamer interface [polypeptide binding]; other site 370558002745 active site 2 [active] 370558002746 thymidine kinase; Provisional; Region: PRK04296 370558002747 peptide chain release factor 1; Validated; Region: prfA; PRK00591 370558002748 RF-1 domain; Region: RF-1; cl02875 370558002749 RF-1 domain; Region: RF-1; cl02875 370558002750 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 370558002751 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 370558002752 S-adenosylmethionine binding site [chemical binding]; other site 370558002753 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 370558002754 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 370558002755 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 370558002756 Coenzyme A binding pocket [chemical binding]; other site 370558002757 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 370558002758 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 370558002759 dimer interface [polypeptide binding]; other site 370558002760 glycine-pyridoxal phosphate binding site [chemical binding]; other site 370558002761 active site 370558002762 folate binding site [chemical binding]; other site 370558002763 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 370558002764 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 370558002765 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 370558002766 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558002767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002768 Walker A/P-loop; other site 370558002769 ATP binding site [chemical binding]; other site 370558002770 Q-loop/lid; other site 370558002771 ABC transporter signature motif; other site 370558002772 Walker B; other site 370558002773 D-loop; other site 370558002774 H-loop/switch region; other site 370558002775 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 370558002776 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558002777 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 370558002778 Walker A/P-loop; other site 370558002779 ATP binding site [chemical binding]; other site 370558002780 Q-loop/lid; other site 370558002781 ABC transporter signature motif; other site 370558002782 Walker B; other site 370558002783 D-loop; other site 370558002784 H-loop/switch region; other site 370558002785 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 370558002786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558002787 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 370558002788 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 370558002789 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 370558002790 tetramer (dimer of dimers) interface [polypeptide binding]; other site 370558002791 NAD binding site [chemical binding]; other site 370558002792 dimer interface [polypeptide binding]; other site 370558002793 substrate binding site [chemical binding]; other site 370558002794 DNA gyrase subunit A; Validated; Region: PRK05560 370558002795 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 370558002796 CAP-like domain; other site 370558002797 active site 370558002798 primary dimer interface [polypeptide binding]; other site 370558002799 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002800 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002801 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002802 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002803 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002804 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 370558002805 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 370558002806 active site 370558002807 catalytic site [active] 370558002808 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 370558002809 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 370558002810 putative metal binding site [ion binding]; other site 370558002811 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 370558002812 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 370558002813 Haemolysin-III related; Region: HlyIII; cl03831 370558002814 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 370558002815 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 370558002816 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 370558002817 GTP/Mg2+ binding site [chemical binding]; other site 370558002818 G4 box; other site 370558002819 G5 box; other site 370558002820 G1 box; other site 370558002821 Switch I region; other site 370558002822 G2 box; other site 370558002823 G3 box; other site 370558002824 Switch II region; other site 370558002825 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 370558002826 RNA/DNA hybrid binding site [nucleotide binding]; other site 370558002827 active site 370558002828 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 370558002829 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 370558002830 DNA topoisomerase I; Validated; Region: PRK05582 370558002831 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 370558002832 active site 370558002833 interdomain interaction site; other site 370558002834 putative metal-binding site [ion binding]; other site 370558002835 nucleotide binding site [chemical binding]; other site 370558002836 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 370558002837 domain I; other site 370558002838 DNA binding groove [nucleotide binding] 370558002839 phosphate binding site [ion binding]; other site 370558002840 domain II; other site 370558002841 domain III; other site 370558002842 nucleotide binding site [chemical binding]; other site 370558002843 catalytic site [active] 370558002844 domain IV; other site 370558002845 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 370558002846 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 370558002847 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 370558002848 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558002849 D-lactate dehydrogenase; Validated; Region: PRK08605 370558002850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002851 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 370558002852 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 370558002853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002854 oxaloacetate decarboxylase; Provisional; Region: PRK12331 370558002855 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 370558002856 active site 370558002857 catalytic residues [active] 370558002858 metal binding site [ion binding]; metal-binding site 370558002859 homodimer binding site [polypeptide binding]; other site 370558002860 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 370558002861 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 370558002862 putative active site [active] 370558002863 (T/H)XGH motif; other site 370558002864 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 370558002865 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 370558002866 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 370558002867 DNA binding site [nucleotide binding] 370558002868 Int/Topo IB signature motif; other site 370558002869 active site 370558002870 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 370558002871 non-specific DNA binding site [nucleotide binding]; other site 370558002872 salt bridge; other site 370558002873 sequence-specific DNA binding site [nucleotide binding]; other site 370558002874 Predicted transcriptional regulator [Transcription]; Region: COG2932 370558002875 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 370558002876 Catalytic site [active] 370558002877 signal recognition particle protein; Provisional; Region: PRK10867 370558002878 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 370558002879 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 370558002880 P loop; other site 370558002881 GTP binding site [chemical binding]; other site 370558002882 Signal peptide binding domain; Region: SRP_SPB; pfam02978 370558002883 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 370558002884 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 370558002885 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 370558002886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558002887 DNA-binding site [nucleotide binding]; DNA binding site 370558002888 UTRA domain; Region: UTRA; cl01230 370558002889 GMP synthase; Reviewed; Region: guaA; PRK00074 370558002890 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 370558002891 AMP/PPi binding site [chemical binding]; other site 370558002892 candidate oxyanion hole; other site 370558002893 catalytic triad [active] 370558002894 potential glutamine specificity residues [chemical binding]; other site 370558002895 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 370558002896 ATP Binding subdomain [chemical binding]; other site 370558002897 Dimerization subdomain; other site 370558002898 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558002899 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 370558002900 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558002901 Walker A/P-loop; other site 370558002902 ATP binding site [chemical binding]; other site 370558002903 Q-loop/lid; other site 370558002904 ABC transporter signature motif; other site 370558002905 Walker B; other site 370558002906 D-loop; other site 370558002907 H-loop/switch region; other site 370558002908 ABC transporter; Region: ABC_tran_2; pfam12848 370558002909 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 370558002910 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558002911 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 370558002912 dimer interface [polypeptide binding]; other site 370558002913 pyridoxal binding site [chemical binding]; other site 370558002914 ATP binding site [chemical binding]; other site 370558002915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558002916 DNA-binding site [nucleotide binding]; DNA binding site 370558002917 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 370558002918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558002919 homodimer interface [polypeptide binding]; other site 370558002920 catalytic residue [active] 370558002921 ATP cone domain; Region: ATP-cone; pfam03477 370558002922 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 370558002923 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 370558002924 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 370558002925 putative active site [active] 370558002926 catalytic site [active] 370558002927 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 370558002928 putative active site [active] 370558002929 catalytic site [active] 370558002930 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 370558002931 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 370558002932 Potassium binding sites [ion binding]; other site 370558002933 Cesium cation binding sites [ion binding]; other site 370558002934 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 370558002935 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 370558002936 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 370558002937 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 370558002938 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 370558002939 putative ADP-ribose binding site [chemical binding]; other site 370558002940 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 370558002941 lipoyl attachment site [posttranslational modification]; other site 370558002942 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 370558002943 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 370558002944 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 370558002945 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 370558002946 putative active site [active] 370558002947 putative FMN binding site [chemical binding]; other site 370558002948 putative substrate binding site [chemical binding]; other site 370558002949 putative catalytic residue [active] 370558002950 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 370558002951 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 370558002952 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 370558002953 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 370558002954 Flavoprotein; Region: Flavoprotein; cl08021 370558002955 Predicted membrane protein [Function unknown]; Region: COG4684 370558002956 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 370558002957 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 370558002958 active site 370558002959 substrate binding site [chemical binding]; other site 370558002960 metal binding site [ion binding]; metal-binding site 370558002961 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 370558002962 TM-ABC transporter signature motif; other site 370558002963 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 370558002964 TM-ABC transporter signature motif; other site 370558002965 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 370558002966 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 370558002967 Walker A/P-loop; other site 370558002968 ATP binding site [chemical binding]; other site 370558002969 Q-loop/lid; other site 370558002970 ABC transporter signature motif; other site 370558002971 Walker B; other site 370558002972 D-loop; other site 370558002973 H-loop/switch region; other site 370558002974 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 370558002975 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 370558002976 ligand binding site [chemical binding]; other site 370558002977 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 370558002978 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 370558002979 active site 370558002980 catalytic motif [active] 370558002981 Zn binding site [ion binding]; other site 370558002982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558002983 Methyltransferase domain; Region: Methyltransf_31; pfam13847 370558002984 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 370558002985 S-adenosylmethionine binding site [chemical binding]; other site 370558002986 pantothenate kinase; Provisional; Region: PRK05439 370558002987 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 370558002988 ATP-binding site [chemical binding]; other site 370558002989 CoA-binding site [chemical binding]; other site 370558002990 Mg2+-binding site [ion binding]; other site 370558002991 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 370558002992 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 370558002993 dimer interface [polypeptide binding]; other site 370558002994 phosphorylation site [posttranslational modification] 370558002995 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 370558002996 ATP binding site [chemical binding]; other site 370558002997 Mg2+ binding site [ion binding]; other site 370558002998 G-X-G motif; other site 370558002999 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558003000 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 370558003001 active site 370558003002 phosphorylation site [posttranslational modification] 370558003003 intermolecular recognition site; other site 370558003004 dimerization interface [polypeptide binding]; other site 370558003005 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 370558003006 DNA binding site [nucleotide binding] 370558003007 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 370558003008 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 370558003009 Zn binding site [ion binding]; other site 370558003010 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 370558003011 PhoU domain; Region: PhoU; pfam01895 370558003012 PhoU domain; Region: PhoU; pfam01895 370558003013 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 370558003014 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 370558003015 Walker A/P-loop; other site 370558003016 ATP binding site [chemical binding]; other site 370558003017 Q-loop/lid; other site 370558003018 ABC transporter signature motif; other site 370558003019 Walker B; other site 370558003020 D-loop; other site 370558003021 H-loop/switch region; other site 370558003022 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 370558003023 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 370558003024 Walker A/P-loop; other site 370558003025 ATP binding site [chemical binding]; other site 370558003026 Q-loop/lid; other site 370558003027 ABC transporter signature motif; other site 370558003028 Walker B; other site 370558003029 D-loop; other site 370558003030 H-loop/switch region; other site 370558003031 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 370558003032 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 370558003033 dimer interface [polypeptide binding]; other site 370558003034 conserved gate region; other site 370558003035 putative PBP binding loops; other site 370558003036 ABC-ATPase subunit interface; other site 370558003037 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 370558003038 dimer interface [polypeptide binding]; other site 370558003039 conserved gate region; other site 370558003040 putative PBP binding loops; other site 370558003041 ABC-ATPase subunit interface; other site 370558003042 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 370558003043 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 370558003044 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 370558003045 S-adenosylmethionine binding site [chemical binding]; other site 370558003046 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 370558003047 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 370558003048 active site 370558003049 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 370558003050 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 370558003051 ArsC family; Region: ArsC; pfam03960 370558003052 putative catalytic residues [active] 370558003053 thiol/disulfide switch; other site 370558003054 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 370558003055 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 370558003056 active site 370558003057 Riboflavin kinase; Region: Flavokinase; cl03312 370558003058 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 370558003059 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 370558003060 RNA binding site [nucleotide binding]; other site 370558003061 active site 370558003062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 370558003063 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 370558003064 Predicted membrane protein [Function unknown]; Region: COG4129 370558003065 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 370558003066 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 370558003067 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 370558003068 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 370558003069 FtsX-like permease family; Region: FtsX; cl15850 370558003070 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 370558003071 FtsX-like permease family; Region: FtsX; cl15850 370558003072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558003073 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 370558003074 Walker A/P-loop; other site 370558003075 ATP binding site [chemical binding]; other site 370558003076 Q-loop/lid; other site 370558003077 ABC transporter signature motif; other site 370558003078 Walker B; other site 370558003079 D-loop; other site 370558003080 H-loop/switch region; other site 370558003081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 370558003082 Helix-turn-helix domains; Region: HTH; cl00088 370558003083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558003084 DNA-binding site [nucleotide binding]; DNA binding site 370558003085 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 370558003086 Asp23 family; Region: Asp23; cl00574 370558003087 CsbD-like; Region: CsbD; cl15799 370558003088 Asp23 family; Region: Asp23; cl00574 370558003089 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 370558003090 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 370558003091 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 370558003092 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558003093 Family description; Region: UvrD_C_2; cl15862 370558003094 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 370558003095 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 370558003096 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 370558003097 Cation efflux family; Region: Cation_efflux; cl00316 370558003098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 370558003099 CAMP factor (Cfa); Region: CAMP_factor; pfam07373 370558003100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558003101 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 370558003102 substrate binding pocket [chemical binding]; other site 370558003103 membrane-bound complex binding site; other site 370558003104 hinge residues; other site 370558003105 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558003106 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558003107 Walker A/P-loop; other site 370558003108 ATP binding site [chemical binding]; other site 370558003109 Q-loop/lid; other site 370558003110 ABC transporter signature motif; other site 370558003111 Walker B; other site 370558003112 D-loop; other site 370558003113 H-loop/switch region; other site 370558003114 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 370558003115 dimer interface [polypeptide binding]; other site 370558003116 conserved gate region; other site 370558003117 ABC-ATPase subunit interface; other site 370558003118 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 370558003119 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 370558003120 PhnA protein; Region: PhnA; pfam03831 370558003121 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 370558003122 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 370558003123 glutaminase active site [active] 370558003124 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 370558003125 dimer interface [polypeptide binding]; other site 370558003126 active site 370558003127 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 370558003128 dimer interface [polypeptide binding]; other site 370558003129 active site 370558003130 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 370558003131 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 370558003132 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 370558003133 pyruvate kinase; Provisional; Region: PRK05826 370558003134 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 370558003135 domain interfaces; other site 370558003136 active site 370558003137 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 370558003138 active site 370558003139 ADP/pyrophosphate binding site [chemical binding]; other site 370558003140 dimerization interface [polypeptide binding]; other site 370558003141 allosteric effector site; other site 370558003142 fructose-1,6-bisphosphate binding site; other site 370558003143 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 370558003144 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 370558003145 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 370558003146 generic binding surface II; other site 370558003147 generic binding surface I; other site 370558003148 Predicted transcriptional regulators [Transcription]; Region: COG1725 370558003149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558003150 DNA-binding site [nucleotide binding]; DNA binding site 370558003151 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 370558003152 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 370558003153 Walker A/P-loop; other site 370558003154 ATP binding site [chemical binding]; other site 370558003155 Q-loop/lid; other site 370558003156 ABC transporter signature motif; other site 370558003157 Walker B; other site 370558003158 D-loop; other site 370558003159 H-loop/switch region; other site 370558003160 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 370558003161 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 370558003162 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 370558003163 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 370558003164 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 370558003165 Transcriptional regulators [Transcription]; Region: PurR; COG1609 370558003166 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 370558003167 DNA binding site [nucleotide binding] 370558003168 domain linker motif; other site 370558003169 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 370558003170 putative dimerization interface [polypeptide binding]; other site 370558003171 putative ligand binding site [chemical binding]; other site 370558003172 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 370558003173 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 370558003174 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 370558003175 dimer interface [polypeptide binding]; other site 370558003176 conserved gate region; other site 370558003177 ABC-ATPase subunit interface; other site 370558003178 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 370558003179 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 370558003180 dimer interface [polypeptide binding]; other site 370558003181 conserved gate region; other site 370558003182 putative PBP binding loops; other site 370558003183 ABC-ATPase subunit interface; other site 370558003184 Helix-turn-helix domains; Region: HTH; cl00088 370558003185 Integrase core domain; Region: rve; cl01316 370558003186 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 370558003187 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 370558003188 DltD N-terminal region; Region: DltD_N; pfam04915 370558003189 DltD central region; Region: DltD_M; pfam04918 370558003190 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 370558003191 Phosphopantetheine attachment site; Region: PP-binding; cl09936 370558003192 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 370558003193 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 370558003194 AMP-binding enzyme; Region: AMP-binding; cl15778 370558003195 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 370558003196 excinuclease ABC subunit B; Provisional; Region: PRK05298 370558003197 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 370558003198 ATP binding site [chemical binding]; other site 370558003199 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 370558003200 nucleotide binding region [chemical binding]; other site 370558003201 ATP-binding site [chemical binding]; other site 370558003202 Ultra-violet resistance protein B; Region: UvrB; pfam12344 370558003203 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558003204 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 370558003205 substrate binding pocket [chemical binding]; other site 370558003206 membrane-bound complex binding site; other site 370558003207 hinge residues; other site 370558003208 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 370558003209 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 370558003210 substrate binding pocket [chemical binding]; other site 370558003211 membrane-bound complex binding site; other site 370558003212 hinge residues; other site 370558003213 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 370558003214 dimer interface [polypeptide binding]; other site 370558003215 conserved gate region; other site 370558003216 putative PBP binding loops; other site 370558003217 ABC-ATPase subunit interface; other site 370558003218 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 370558003219 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 370558003220 Walker A/P-loop; other site 370558003221 ATP binding site [chemical binding]; other site 370558003222 Q-loop/lid; other site 370558003223 ABC transporter signature motif; other site 370558003224 Walker B; other site 370558003225 D-loop; other site 370558003226 H-loop/switch region; other site 370558003227 Transposase domain (DUF772); Region: DUF772; cl15789 370558003228 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558003229 Transposase domain (DUF772); Region: DUF772; cl15789 370558003230 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558003231 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 370558003232 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 370558003233 hydrophobic ligand binding site; other site 370558003234 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 370558003235 active site 370558003236 methionine cluster; other site 370558003237 phosphorylation site [posttranslational modification] 370558003238 metal binding site [ion binding]; metal-binding site 370558003239 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 370558003240 active site 370558003241 P-loop; other site 370558003242 phosphorylation site [posttranslational modification] 370558003243 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 370558003244 Helix-turn-helix domains; Region: HTH; cl00088 370558003245 Helix-turn-helix domains; Region: HTH; cl00088 370558003246 PRD domain; Region: PRD; cl15445 370558003247 PRD domain; Region: PRD; cl15445 370558003248 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 370558003249 P-loop; other site 370558003250 active site 370558003251 phosphorylation site [posttranslational modification] 370558003252 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 370558003253 active site 370558003254 phosphorylation site [posttranslational modification] 370558003255 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 370558003256 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 370558003257 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 370558003258 GTPase CgtA; Reviewed; Region: obgE; PRK12297 370558003259 GTP1/OBG; Region: GTP1_OBG; pfam01018 370558003260 Obg GTPase; Region: Obg; cd01898 370558003261 G1 box; other site 370558003262 GTP/Mg2+ binding site [chemical binding]; other site 370558003263 Switch I region; other site 370558003264 G2 box; other site 370558003265 G3 box; other site 370558003266 Switch II region; other site 370558003267 G4 box; other site 370558003268 G5 box; other site 370558003269 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 370558003270 Protein of unknown function (DUF4044); Region: DUF4044; pfam13253 370558003271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 370558003272 Helix-turn-helix domains; Region: HTH; cl00088 370558003273 putative transposase OrfB; Reviewed; Region: PHA02517 370558003274 HTH-like domain; Region: HTH_21; pfam13276 370558003275 Integrase core domain; Region: rve; cl01316 370558003276 Integrase core domain; Region: rve_3; cl15866 370558003277 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 370558003278 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 370558003279 RNA binding surface [nucleotide binding]; other site 370558003280 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 370558003281 active site 370558003282 uracil binding [chemical binding]; other site 370558003283 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 370558003284 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 370558003285 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 370558003286 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 370558003287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 370558003288 hypothetical protein; Provisional; Region: PRK13663 370558003289 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 370558003290 CoenzymeA binding site [chemical binding]; other site 370558003291 subunit interaction site [polypeptide binding]; other site 370558003292 PHB binding site; other site 370558003293 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558003294 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558003295 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 370558003296 TRAM domain; Region: TRAM; cl01282 370558003297 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 370558003298 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 370558003299 shikimate kinase; Reviewed; Region: aroK; PRK00131 370558003300 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 370558003301 ADP binding site [chemical binding]; other site 370558003302 magnesium binding site [ion binding]; other site 370558003303 putative shikimate binding site; other site 370558003304 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 370558003305 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 370558003306 hinge; other site 370558003307 active site 370558003308 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 370558003309 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 370558003310 active site 370558003311 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 370558003312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558003313 DNA-binding site [nucleotide binding]; DNA binding site 370558003314 DRTGG domain; Region: DRTGG; cl12147 370558003315 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 370558003316 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; cd03440 370558003317 active site 2 [active] 370558003318 active site 1 [active] 370558003319 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 370558003320 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558003321 Gram positive anchor; Region: Gram_pos_anchor; cl15427 370558003322 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 370558003323 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 370558003324 hinge; other site 370558003325 active site 370558003326 S-adenosylmethionine synthetase; Validated; Region: PRK05250 370558003327 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 370558003328 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 370558003329 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 370558003330 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 370558003331 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 370558003332 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 370558003333 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 370558003334 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 370558003335 Helix-turn-helix domains; Region: HTH; cl00088 370558003336 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 370558003337 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 370558003338 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 370558003339 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 370558003340 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558003341 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558003342 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558003343 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 370558003344 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 370558003345 Walker A motif; other site 370558003346 ATP binding site [chemical binding]; other site 370558003347 Walker B motif; other site 370558003348 arginine finger; other site 370558003349 GAF domain; Region: GAF; cl15785 370558003350 Protease prsW family; Region: PrsW-protease; cl15823 370558003351 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 370558003352 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 370558003353 Sugar specificity; other site 370558003354 Pyrimidine base specificity; other site 370558003355 ATP-binding site [chemical binding]; other site 370558003356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558003357 ATP binding site [chemical binding]; other site 370558003358 putative Mg++ binding site [ion binding]; other site 370558003359 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 370558003360 nucleotide binding region [chemical binding]; other site 370558003361 ATP-binding site [chemical binding]; other site 370558003362 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 370558003363 NodB motif; other site 370558003364 active site 370558003365 catalytic site [active] 370558003366 Zn binding site [ion binding]; other site 370558003367 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 370558003368 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 370558003369 tetrameric interface [polypeptide binding]; other site 370558003370 activator binding site; other site 370558003371 NADP binding site [chemical binding]; other site 370558003372 substrate binding site [chemical binding]; other site 370558003373 catalytic residues [active] 370558003374 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 370558003375 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 370558003376 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 370558003377 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 370558003378 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 370558003379 dimerization domain swap beta strand [polypeptide binding]; other site 370558003380 regulatory protein interface [polypeptide binding]; other site 370558003381 active site 370558003382 regulatory phosphorylation site [posttranslational modification]; other site 370558003383 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 370558003384 catalytic residues [active] 370558003385 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 370558003386 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 370558003387 Class I ribonucleotide reductase; Region: RNR_I; cd01679 370558003388 active site 370558003389 dimer interface [polypeptide binding]; other site 370558003390 catalytic residues [active] 370558003391 effector binding site; other site 370558003392 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 370558003393 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 370558003394 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 370558003395 dimer interface [polypeptide binding]; other site 370558003396 putative radical transfer pathway; other site 370558003397 diiron center [ion binding]; other site 370558003398 tyrosyl radical; other site 370558003399 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 370558003400 putative ion selectivity filter; other site 370558003401 putative pore gating glutamate residue; other site 370558003402 Helix-turn-helix domains; Region: HTH; cl00088 370558003403 HTH-like domain; Region: HTH_21; pfam13276 370558003404 Integrase core domain; Region: rve; cl01316 370558003405 Integrase core domain; Region: rve_3; cl15866 370558003406 CAAX protease self-immunity; Region: Abi; cl00558 370558003407 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 370558003408 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 370558003409 non-specific DNA binding site [nucleotide binding]; other site 370558003410 salt bridge; other site 370558003411 sequence-specific DNA binding site [nucleotide binding]; other site 370558003412 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 370558003413 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 370558003414 motif 1; other site 370558003415 active site 370558003416 motif 2; other site 370558003417 motif 3; other site 370558003418 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 370558003419 DHHA1 domain; Region: DHHA1; pfam02272 370558003420 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 370558003421 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 370558003422 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 370558003423 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 370558003424 S-adenosylmethionine binding site [chemical binding]; other site 370558003425 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 370558003426 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 370558003427 putative substrate translocation pore; other site 370558003428 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 370558003429 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 370558003430 active site 370558003431 Zn binding site [ion binding]; other site 370558003432 Competence protein CoiA-like family; Region: CoiA; cl11541 370558003433 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 370558003434 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 370558003435 RNA binding surface [nucleotide binding]; other site 370558003436 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 370558003437 active site 370558003438 uracil binding [chemical binding]; other site 370558003439 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 370558003440 active site 370558003441 trimer interface [polypeptide binding]; other site 370558003442 allosteric site; other site 370558003443 active site lid [active] 370558003444 hexamer (dimer of trimers) interface [polypeptide binding]; other site 370558003445 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 370558003446 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 370558003447 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 370558003448 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 370558003449 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558003450 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 370558003451 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 370558003452 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 370558003453 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 370558003454 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 370558003455 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 370558003456 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 370558003457 Competence protein; Region: Competence; cl00471 370558003458 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558003459 SLBB domain; Region: SLBB; pfam10531 370558003460 comEA protein; Region: comE; TIGR01259 370558003461 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 370558003462 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 370558003463 putative acyl-acceptor binding pocket; other site 370558003464 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 370558003465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558003466 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 370558003467 GIY-YIG motif/motif A; other site 370558003468 putative active site [active] 370558003469 putative metal binding site [ion binding]; other site 370558003470 K+ potassium transporter; Region: K_trans; cl15781 370558003471 helicase 45; Provisional; Region: PTZ00424 370558003472 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 370558003473 ATP binding site [chemical binding]; other site 370558003474 Mg++ binding site [ion binding]; other site 370558003475 motif III; other site 370558003476 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 370558003477 nucleotide binding region [chemical binding]; other site 370558003478 ATP-binding site [chemical binding]; other site 370558003479 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 370558003480 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 370558003481 G1 box; other site 370558003482 putative GEF interaction site [polypeptide binding]; other site 370558003483 GTP/Mg2+ binding site [chemical binding]; other site 370558003484 Switch I region; other site 370558003485 G2 box; other site 370558003486 G3 box; other site 370558003487 Switch II region; other site 370558003488 G4 box; other site 370558003489 G5 box; other site 370558003490 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 370558003491 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 370558003492 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 370558003493 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 370558003494 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558003495 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558003496 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 370558003497 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 370558003498 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558003499 recombination protein RecR; Reviewed; Region: recR; PRK00076 370558003500 RecR protein; Region: RecR; pfam02132 370558003501 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 370558003502 putative active site [active] 370558003503 putative metal-binding site [ion binding]; other site 370558003504 tetramer interface [polypeptide binding]; other site 370558003505 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558003506 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 370558003507 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 370558003508 Helix-turn-helix domains; Region: HTH; cl00088 370558003509 3H domain; Region: 3H; pfam02829 370558003510 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 370558003511 catalytic core [active] 370558003512 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 370558003513 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 370558003514 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. 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...; Region: DHOD_1A_like; cd04741 370558003515 active site 370558003516 FMN binding site [chemical binding]; other site 370558003517 substrate binding site [chemical binding]; other site 370558003518 catalytic residues [active] 370558003519 homodimer interface [polypeptide binding]; other site 370558003520 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 370558003521 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 370558003522 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558003523 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 370558003524 IHF dimer interface [polypeptide binding]; other site 370558003525 IHF - DNA interface [nucleotide binding]; other site 370558003526 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 370558003527 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 370558003528 active site 370558003529 catalytic triad [active] 370558003530 oxyanion hole [active] 370558003531 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 370558003532 Gram positive anchor; Region: Gram_pos_anchor; cl15427 370558003533 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 370558003534 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 370558003535 Walker A/P-loop; other site 370558003536 ATP binding site [chemical binding]; other site 370558003537 Q-loop/lid; other site 370558003538 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 370558003539 ABC transporter signature motif; other site 370558003540 Walker B; other site 370558003541 D-loop; other site 370558003542 H-loop/switch region; other site 370558003543 Arginine repressor [Transcription]; Region: ArgR; COG1438 370558003544 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 370558003545 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 370558003546 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 370558003547 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 370558003548 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 370558003549 substrate binding pocket [chemical binding]; other site 370558003550 chain length determination region; other site 370558003551 substrate-Mg2+ binding site; other site 370558003552 catalytic residues [active] 370558003553 aspartate-rich region 1; other site 370558003554 active site lid residues [active] 370558003555 aspartate-rich region 2; other site 370558003556 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 370558003557 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 370558003558 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 370558003559 generic binding surface II; other site 370558003560 generic binding surface I; other site 370558003561 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 370558003562 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 370558003563 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 370558003564 homodimer interface [polypeptide binding]; other site 370558003565 NADP binding site [chemical binding]; other site 370558003566 substrate binding site [chemical binding]; other site 370558003567 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 370558003568 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 370558003569 active site 370558003570 substrate binding site [chemical binding]; other site 370558003571 metal binding site [ion binding]; metal-binding site 370558003572 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 370558003573 DNA photolyase; Region: DNA_photolyase; pfam00875 370558003574 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 370558003575 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 370558003576 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 370558003577 Walker A/P-loop; other site 370558003578 ATP binding site [chemical binding]; other site 370558003579 Q-loop/lid; other site 370558003580 ABC transporter signature motif; other site 370558003581 Walker B; other site 370558003582 D-loop; other site 370558003583 H-loop/switch region; other site 370558003584 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 370558003585 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 370558003586 dimer interface [polypeptide binding]; other site 370558003587 conserved gate region; other site 370558003588 putative PBP binding loops; other site 370558003589 ABC-ATPase subunit interface; other site 370558003590 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 370558003591 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 370558003592 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 370558003593 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 370558003594 Walker A motif; other site 370558003595 ATP binding site [chemical binding]; other site 370558003596 Walker B motif; other site 370558003597 arginine finger; other site 370558003598 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 370558003599 UvrB/uvrC motif; Region: UVR; pfam02151 370558003600 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 370558003601 Walker A motif; other site 370558003602 ATP binding site [chemical binding]; other site 370558003603 Walker B motif; other site 370558003604 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 370558003605 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 370558003606 nudix motif; other site 370558003607 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 370558003608 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 370558003609 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 370558003610 active site 370558003611 HIGH motif; other site 370558003612 nucleotide binding site [chemical binding]; other site 370558003613 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 370558003614 active site 370558003615 KMSKS motif; other site 370558003616 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 370558003617 tRNA binding surface [nucleotide binding]; other site 370558003618 anticodon binding site; other site 370558003619 DivIVA protein; Region: DivIVA; pfam05103 370558003620 DivIVA domain; Region: DivI1A_domain; TIGR03544 370558003621 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 370558003622 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 370558003623 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 370558003624 YGGT family; Region: YGGT; cl00508 370558003625 Protein of unknown function (DUF552); Region: DUF552; cl00775 370558003626 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 370558003627 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 370558003628 catalytic residue [active] 370558003629 cell division protein FtsZ; Validated; Region: PRK09330 370558003630 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 370558003631 nucleotide binding site [chemical binding]; other site 370558003632 SulA interaction site; other site 370558003633 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 370558003634 Cell division protein FtsA; Region: FtsA; cl11496 370558003635 Cell division protein FtsA; Region: FtsA; cl11496 370558003636 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 370558003637 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 370558003638 Cell division protein FtsQ; Region: FtsQ; pfam03799 370558003639 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 370558003640 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 370558003641 active site 370558003642 homodimer interface [polypeptide binding]; other site 370558003643 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 370558003644 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 370558003645 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 370558003646 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 370558003647 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 370558003648 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 370558003649 G1 box; other site 370558003650 putative GEF interaction site [polypeptide binding]; other site 370558003651 GTP/Mg2+ binding site [chemical binding]; other site 370558003652 Switch I region; other site 370558003653 G2 box; other site 370558003654 G3 box; other site 370558003655 Switch II region; other site 370558003656 G4 box; other site 370558003657 G5 box; other site 370558003658 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 370558003659 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 370558003660 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 370558003661 active site residue [active] 370558003662 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 370558003663 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 370558003664 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 370558003665 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 370558003666 Ferritin-like domain; Region: Ferritin; pfam00210 370558003667 dimerization interface [polypeptide binding]; other site 370558003668 DPS ferroxidase diiron center [ion binding]; other site 370558003669 ion pore; other site 370558003670 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 370558003671 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 370558003672 FeS/SAM binding site; other site 370558003673 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 370558003674 Transcriptional regulators [Transcription]; Region: PurR; COG1609 370558003675 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 370558003676 DNA binding site [nucleotide binding] 370558003677 domain linker motif; other site 370558003678 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 370558003679 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 370558003680 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 370558003681 protein binding site [polypeptide binding]; other site 370558003682 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 370558003683 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 370558003684 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 370558003685 active site 370558003686 (T/H)XGH motif; other site 370558003687 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 370558003688 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 370558003689 S-adenosylmethionine binding site [chemical binding]; other site 370558003690 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 370558003691 dimer interface [polypeptide binding]; other site 370558003692 active site 370558003693 carbamate kinase; Reviewed; Region: PRK12686 370558003694 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 370558003695 putative substrate binding site [chemical binding]; other site 370558003696 nucleotide binding site [chemical binding]; other site 370558003697 nucleotide binding site [chemical binding]; other site 370558003698 homodimer interface [polypeptide binding]; other site 370558003699 hypothetical protein; Provisional; Region: PRK07205 370558003700 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 370558003701 active site 370558003702 metal binding site [ion binding]; metal-binding site 370558003703 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 370558003704 ornithine carbamoyltransferase; Validated; Region: PRK02102 370558003705 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 370558003706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558003707 Amidinotransferase; Region: Amidinotransf; cl12043 370558003708 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 370558003709 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 370558003710 ligand binding site [chemical binding]; other site 370558003711 flexible hinge region; other site 370558003712 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 370558003713 putative switch regulator; other site 370558003714 non-specific DNA interactions [nucleotide binding]; other site 370558003715 DNA binding site [nucleotide binding] 370558003716 sequence specific DNA binding site [nucleotide binding]; other site 370558003717 putative cAMP binding site [chemical binding]; other site 370558003718 Arginine repressor [Transcription]; Region: ArgR; COG1438 370558003719 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 370558003720 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 370558003721 B3/4 domain; Region: B3_4; cl11458 370558003722 Protein of unknown function (DUF419); Region: DUF419; cl15265 370558003723 Cache domain; Region: Cache_1; pfam02743 370558003724 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 370558003725 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 370558003726 Histidine kinase; Region: His_kinase; pfam06580 370558003727 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 370558003728 ATP binding site [chemical binding]; other site 370558003729 Mg2+ binding site [ion binding]; other site 370558003730 G-X-G motif; other site 370558003731 Response regulator receiver domain; Region: Response_reg; pfam00072 370558003732 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 370558003733 active site 370558003734 phosphorylation site [posttranslational modification] 370558003735 intermolecular recognition site; other site 370558003736 dimerization interface [polypeptide binding]; other site 370558003737 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 370558003738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 370558003739 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 370558003740 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 370558003741 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 370558003742 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 370558003743 catalytic residues [active] 370558003744 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 370558003745 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 370558003746 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 370558003747 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 370558003748 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 370558003749 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 370558003750 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 370558003751 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 370558003752 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 370558003753 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 370558003754 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 370558003755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558003756 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 370558003757 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 370558003758 active site 370558003759 HIGH motif; other site 370558003760 nucleotide binding site [chemical binding]; other site 370558003761 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 370558003762 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 370558003763 active site 370558003764 KMSKS motif; other site 370558003765 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 370558003766 tRNA binding surface [nucleotide binding]; other site 370558003767 anticodon binding site; other site 370558003768 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 370558003769 AAA domain; Region: AAA_18; pfam13238 370558003770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558003771 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 370558003772 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 370558003773 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 370558003774 NeuB family; Region: NeuB; cl00496 370558003775 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 370558003776 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 370558003777 active site 370558003778 dimer interface [polypeptide binding]; other site 370558003779 metal binding site [ion binding]; metal-binding site 370558003780 Cupin domain; Region: Cupin_2; cl09118 370558003781 Cupin domain; Region: Cupin_2; cl09118 370558003782 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 370558003783 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 370558003784 S-adenosylmethionine binding site [chemical binding]; other site 370558003785 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 370558003786 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 370558003787 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 370558003788 shikimate binding site; other site 370558003789 NAD(P) binding site [chemical binding]; other site 370558003790 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 370558003791 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 370558003792 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 370558003793 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 370558003794 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 370558003795 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 370558003796 active site 370558003797 phosphorylation site [posttranslational modification] 370558003798 intermolecular recognition site; other site 370558003799 dimerization interface [polypeptide binding]; other site 370558003800 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 370558003801 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 370558003802 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 370558003803 Histidine kinase; Region: His_kinase; pfam06580 370558003804 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; cl00075 370558003805 Protein of unknown function, DUF624; Region: DUF624; cl02369 370558003806 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 370558003807 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 370558003808 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 370558003809 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 370558003810 dimer interface [polypeptide binding]; other site 370558003811 conserved gate region; other site 370558003812 putative PBP binding loops; other site 370558003813 ABC-ATPase subunit interface; other site 370558003814 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 370558003815 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 370558003816 putative PBP binding loops; other site 370558003817 dimer interface [polypeptide binding]; other site 370558003818 ABC-ATPase subunit interface; other site 370558003819 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 370558003820 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 370558003821 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 370558003822 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 370558003823 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 370558003824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558003825 DNA-binding site [nucleotide binding]; DNA binding site 370558003826 Transcriptional regulators [Transcription]; Region: PurR; COG1609 370558003827 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 370558003828 ligand binding site [chemical binding]; other site 370558003829 dimerization interface [polypeptide binding]; other site 370558003830 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 370558003831 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 370558003832 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 370558003833 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 370558003834 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 370558003835 GPI biosynthesis protein family Pig-F; Region: PIG-F; pfam06699 370558003836 TRAM domain; Region: TRAM; cl01282 370558003837 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 370558003838 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 370558003839 RecX family; Region: RecX; cl00936 370558003840 Protein of unknown function (DUF402); Region: DUF402; cl00979 370558003841 Transposase; Region: DEDD_Tnp_IS110; pfam01548 370558003842 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 370558003843 30S subunit binding site; other site 370558003844 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 370558003845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 370558003846 active site 370558003847 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 370558003848 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 370558003849 ATP binding site [chemical binding]; other site 370558003850 putative Mg++ binding site [ion binding]; other site 370558003851 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 370558003852 nucleotide binding region [chemical binding]; other site 370558003853 ATP-binding site [chemical binding]; other site 370558003854 Uncharacterized conserved protein [Function unknown]; Region: COG1739 370558003855 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 370558003856 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 370558003857 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 370558003858 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 370558003859 dimer interface [polypeptide binding]; other site 370558003860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558003861 catalytic residue [active] 370558003862 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 370558003863 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 370558003864 RNA binding site [nucleotide binding]; other site 370558003865 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558003866 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 370558003867 active site 370558003868 motif I; other site 370558003869 motif II; other site 370558003870 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558003871 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 370558003872 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 370558003873 active site 370558003874 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 370558003875 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 370558003876 active site 370558003877 phosphorylation site [posttranslational modification] 370558003878 intermolecular recognition site; other site 370558003879 dimerization interface [polypeptide binding]; other site 370558003880 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 370558003881 DNA binding residues [nucleotide binding] 370558003882 dimerization interface [polypeptide binding]; other site 370558003883 Histidine kinase; Region: HisKA_3; pfam07730 370558003884 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 370558003885 ATP binding site [chemical binding]; other site 370558003886 Mg2+ binding site [ion binding]; other site 370558003887 G-X-G motif; other site 370558003888 Predicted membrane protein [Function unknown]; Region: COG4758 370558003889 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 370558003890 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 370558003891 Catalytic domain of Protein Kinases; Region: PKc; cd00180 370558003892 active site 370558003893 ATP binding site [chemical binding]; other site 370558003894 substrate binding site [chemical binding]; other site 370558003895 activation loop (A-loop); other site 370558003896 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 370558003897 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 370558003898 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 370558003899 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 370558003900 active site 370558003901 16S rRNA methyltransferase B; Provisional; Region: PRK14902 370558003902 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 370558003903 putative RNA binding site [nucleotide binding]; other site 370558003904 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 370558003905 S-adenosylmethionine binding site [chemical binding]; other site 370558003906 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 370558003907 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 370558003908 putative active site [active] 370558003909 substrate binding site [chemical binding]; other site 370558003910 putative cosubstrate binding site; other site 370558003911 catalytic site [active] 370558003912 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 370558003913 substrate binding site [chemical binding]; other site 370558003914 primosome assembly protein PriA; Validated; Region: PRK05580 370558003915 primosome assembly protein PriA; Validated; Region: PRK05580 370558003916 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 370558003917 ATP binding site [chemical binding]; other site 370558003918 putative Mg++ binding site [ion binding]; other site 370558003919 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 370558003920 nucleotide binding region [chemical binding]; other site 370558003921 ATP-binding site [chemical binding]; other site 370558003922 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 370558003923 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 370558003924 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 370558003925 catalytic site [active] 370558003926 G-X2-G-X-G-K; other site 370558003927 hypothetical protein; Provisional; Region: PRK00106 370558003928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558003929 Transcriptional regulator [Transcription]; Region: LysR; COG0583 370558003930 Helix-turn-helix domains; Region: HTH; cl00088 370558003931 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 370558003932 dimerization interface [polypeptide binding]; other site 370558003933 putative acyltransferase; Provisional; Region: PRK05790 370558003934 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 370558003935 dimer interface [polypeptide binding]; other site 370558003936 active site 370558003937 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 370558003938 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 370558003939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558003940 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 370558003941 NAD(P) binding site [chemical binding]; other site 370558003942 active site 370558003943 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 370558003944 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 370558003945 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 370558003946 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 370558003947 THUMP domain; Region: THUMP; cl12076 370558003948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558003949 cell division protein GpsB; Provisional; Region: PRK14127 370558003950 DivIVA domain; Region: DivI1A_domain; TIGR03544 370558003951 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 370558003952 Recombination protein U; Region: RecU; cl01314 370558003953 Transglycosylase; Region: Transgly; cl07896 370558003954 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 370558003955 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558003956 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 370558003957 trimer interface [polypeptide binding]; other site 370558003958 active site 370558003959 G bulge; other site 370558003960 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 370558003961 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 370558003962 homodimer interface [polypeptide binding]; other site 370558003963 NAD binding pocket [chemical binding]; other site 370558003964 ATP binding pocket [chemical binding]; other site 370558003965 Mg binding site [ion binding]; other site 370558003966 active-site loop [active] 370558003967 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 370558003968 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 370558003969 active site 370558003970 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 370558003971 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 370558003972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558003973 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558003974 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 370558003975 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 370558003976 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 370558003977 Walker A/P-loop; other site 370558003978 ATP binding site [chemical binding]; other site 370558003979 Q-loop/lid; other site 370558003980 ABC transporter signature motif; other site 370558003981 Walker B; other site 370558003982 D-loop; other site 370558003983 H-loop/switch region; other site 370558003984 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 370558003985 dimer interface [polypeptide binding]; other site 370558003986 conserved gate region; other site 370558003987 putative PBP binding loops; other site 370558003988 ABC-ATPase subunit interface; other site 370558003989 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 370558003990 DEAD-like helicases superfamily; Region: DEXDc; smart00487 370558003991 ATP binding site [chemical binding]; other site 370558003992 Mg++ binding site [ion binding]; other site 370558003993 motif III; other site 370558003994 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 370558003995 nucleotide binding region [chemical binding]; other site 370558003996 ATP-binding site [chemical binding]; other site 370558003997 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 370558003998 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 370558003999 Mg++ binding site [ion binding]; other site 370558004000 putative catalytic motif [active] 370558004001 putative substrate binding site [chemical binding]; other site 370558004002 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 370558004003 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 370558004004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558004005 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 370558004006 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 370558004007 Septum formation initiator; Region: DivIC; cl11433 370558004008 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 370558004009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558004010 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 370558004011 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 370558004012 putative catalytic cysteine [active] 370558004013 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 370558004014 nucleotide binding site [chemical binding]; other site 370558004015 homotetrameric interface [polypeptide binding]; other site 370558004016 putative phosphate binding site [ion binding]; other site 370558004017 putative allosteric binding site; other site 370558004018 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 370558004019 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 370558004020 Walker A/P-loop; other site 370558004021 ATP binding site [chemical binding]; other site 370558004022 Q-loop/lid; other site 370558004023 ABC transporter signature motif; other site 370558004024 Walker B; other site 370558004025 D-loop; other site 370558004026 H-loop/switch region; other site 370558004027 Enterocin A Immunity; Region: EntA_Immun; pfam08951 370558004028 transketolase; Reviewed; Region: PRK05899 370558004029 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 370558004030 TPP-binding site [chemical binding]; other site 370558004031 dimer interface [polypeptide binding]; other site 370558004032 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 370558004033 PYR/PP interface [polypeptide binding]; other site 370558004034 dimer interface [polypeptide binding]; other site 370558004035 TPP binding site [chemical binding]; other site 370558004036 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 370558004037 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 370558004038 active site 370558004039 intersubunit interactions; other site 370558004040 catalytic residue [active] 370558004041 Helix-turn-helix domains; Region: HTH; cl00088 370558004042 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 370558004043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 370558004044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 370558004045 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; cl00200 370558004046 amphipathic channel; other site 370558004047 Asn-Pro-Ala signature motifs; other site 370558004048 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 370558004049 glycerol kinase; Provisional; Region: glpK; PRK00047 370558004050 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 370558004051 N- and C-terminal domain interface [polypeptide binding]; other site 370558004052 active site 370558004053 MgATP binding site [chemical binding]; other site 370558004054 catalytic site [active] 370558004055 metal binding site [ion binding]; metal-binding site 370558004056 glycerol binding site [chemical binding]; other site 370558004057 homotetramer interface [polypeptide binding]; other site 370558004058 homodimer interface [polypeptide binding]; other site 370558004059 FBP binding site [chemical binding]; other site 370558004060 protein IIAGlc interface [polypeptide binding]; other site 370558004061 Predicted membrane protein [Function unknown]; Region: COG3212 370558004062 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 370558004063 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 370558004064 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 370558004065 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 370558004066 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 370558004067 dimer interface [polypeptide binding]; other site 370558004068 motif 1; other site 370558004069 active site 370558004070 motif 2; other site 370558004071 motif 3; other site 370558004072 Phospholipid methyltransferase; Region: PEMT; cl00763 370558004073 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 370558004074 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 370558004075 active site 370558004076 catalytic tetrad [active] 370558004077 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 370558004078 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 370558004079 active site 370558004080 dimer interface [polypeptide binding]; other site 370558004081 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 370558004082 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 370558004083 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 370558004084 PhoU domain; Region: PhoU; pfam01895 370558004085 PhoU domain; Region: PhoU; pfam01895 370558004086 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 370558004087 Helix-turn-helix domains; Region: HTH; cl00088 370558004088 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 370558004089 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558004090 active site 370558004091 motif I; other site 370558004092 motif II; other site 370558004093 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 370558004094 Predicted membrane protein [Function unknown]; Region: COG2860 370558004095 UPF0126 domain; Region: UPF0126; pfam03458 370558004096 UPF0126 domain; Region: UPF0126; pfam03458 370558004097 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 370558004098 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 370558004099 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 370558004100 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 370558004101 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 370558004102 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 370558004103 P-loop; other site 370558004104 active site 370558004105 phosphorylation site [posttranslational modification] 370558004106 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 370558004107 active site 370558004108 phosphorylation site [posttranslational modification] 370558004109 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 370558004110 Helix-turn-helix domains; Region: HTH; cl00088 370558004111 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 370558004112 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 370558004113 metal-binding site [ion binding] 370558004114 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 370558004115 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 370558004116 metal-binding site [ion binding] 370558004117 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 370558004118 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558004119 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 370558004120 Helix-turn-helix domains; Region: HTH; cl00088 370558004121 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 370558004122 Ribosome-binding factor A; Region: RBFA; cl00542 370558004123 translation initiation factor IF-2; Validated; Region: infB; PRK05306 370558004124 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 370558004125 translation initiation factor IF-2; Region: IF-2; TIGR00487 370558004126 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 370558004127 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 370558004128 G1 box; other site 370558004129 putative GEF interaction site [polypeptide binding]; other site 370558004130 GTP/Mg2+ binding site [chemical binding]; other site 370558004131 Switch I region; other site 370558004132 G2 box; other site 370558004133 G3 box; other site 370558004134 Switch II region; other site 370558004135 G4 box; other site 370558004136 G5 box; other site 370558004137 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 370558004138 Translation-initiation factor 2; Region: IF-2; pfam11987 370558004139 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 370558004140 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 370558004141 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 370558004142 putative RNA binding cleft [nucleotide binding]; other site 370558004143 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 370558004144 NusA N-terminal domain; Region: NusA_N; pfam08529 370558004145 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 370558004146 RNA binding site [nucleotide binding]; other site 370558004147 homodimer interface [polypeptide binding]; other site 370558004148 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 370558004149 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 370558004150 G-X-X-G motif; other site 370558004151 ribosome maturation protein RimP; Reviewed; Region: PRK00092 370558004152 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 370558004153 Sm1 motif; other site 370558004154 predicted subunit interaction site [polypeptide binding]; other site 370558004155 RNA binding pocket [nucleotide binding]; other site 370558004156 Sm2 motif; other site 370558004157 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 370558004158 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 370558004159 NlpC/P60 family; Region: NLPC_P60; cl11438 370558004160 Bacterial SH3 domain; Region: SH3_3; cl02551 370558004161 gp58-like protein; Region: Gp58; pfam07902 370558004162 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 370558004163 hypothetical protein; Region: PHA01795 370558004164 Phage tail protein; Region: Sipho_tail; pfam05709 370558004165 tape measure domain; Region: tape_meas_nterm; TIGR02675 370558004166 Phage protein; Region: DUF3647; cl10335 370558004167 Phage major tail protein 2; Region: Phage_tail_2; cl11463 370558004168 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 370558004169 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 370558004170 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 370558004171 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 370558004172 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 370558004173 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 370558004174 Phage terminase large subunit; Region: Terminase_3; cl12054 370558004175 Terminase-like family; Region: Terminase_6; pfam03237 370558004176 Terminase small subunit; Region: Terminase_2; cl01513 370558004177 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 370558004178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558004179 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 370558004180 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 370558004181 ATP binding site [chemical binding]; other site 370558004182 putative Mg++ binding site [ion binding]; other site 370558004183 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 370558004184 nucleotide binding region [chemical binding]; other site 370558004185 ATP-binding site [chemical binding]; other site 370558004186 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 370558004187 Phage associated DNA primase [General function prediction only]; Region: COG3378 370558004188 D5 N terminal like; Region: D5_N; cl07360 370558004189 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 370558004190 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 370558004191 active site 370558004192 DNA binding site [nucleotide binding] 370558004193 catalytic site [active] 370558004194 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 370558004195 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 370558004196 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 370558004197 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 370558004198 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 370558004199 Domain of unknown function (DUF955); Region: DUF955; cl01076 370558004200 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 370558004201 Int/Topo IB signature motif; other site 370558004202 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 370558004203 S-adenosylmethionine binding site [chemical binding]; other site 370558004204 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 370558004205 Phosphotransferase enzyme family; Region: APH; pfam01636 370558004206 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 370558004207 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 370558004208 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 370558004209 Walker A/P-loop; other site 370558004210 ATP binding site [chemical binding]; other site 370558004211 Q-loop/lid; other site 370558004212 ABC transporter signature motif; other site 370558004213 Walker B; other site 370558004214 D-loop; other site 370558004215 H-loop/switch region; other site 370558004216 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 370558004217 HIT family signature motif; other site 370558004218 catalytic residue [active] 370558004219 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 370558004220 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558004221 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 370558004222 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 370558004223 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 370558004224 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558004225 active site 370558004226 motif I; other site 370558004227 motif II; other site 370558004228 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558004229 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 370558004230 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 370558004231 active pocket/dimerization site; other site 370558004232 active site 370558004233 phosphorylation site [posttranslational modification] 370558004234 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 370558004235 active site 370558004236 phosphorylation site [posttranslational modification] 370558004237 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 370558004238 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 370558004239 Domain of unknown function (DUF956); Region: DUF956; cl01917 370558004240 seryl-tRNA synthetase; Provisional; Region: PRK05431 370558004241 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 370558004242 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 370558004243 dimer interface [polypeptide binding]; other site 370558004244 active site 370558004245 motif 1; other site 370558004246 motif 2; other site 370558004247 motif 3; other site 370558004248 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 370558004249 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 370558004250 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 370558004251 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 370558004252 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 370558004253 ATP-grasp domain; Region: ATP-grasp_4; cl03087 370558004254 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 370558004255 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 370558004256 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 370558004257 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 370558004258 carboxyltransferase (CT) interaction site; other site 370558004259 biotinylation site [posttranslational modification]; other site 370558004260 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 370558004261 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 370558004262 dimer interface [polypeptide binding]; other site 370558004263 active site 370558004264 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 370558004265 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 370558004266 NAD(P) binding site [chemical binding]; other site 370558004267 homotetramer interface [polypeptide binding]; other site 370558004268 homodimer interface [polypeptide binding]; other site 370558004269 active site 370558004270 Acyl transferase domain; Region: Acyl_transf_1; cl08282 370558004271 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 370558004272 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 370558004273 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 370558004274 FMN binding site [chemical binding]; other site 370558004275 substrate binding site [chemical binding]; other site 370558004276 putative catalytic residue [active] 370558004277 Phosphopantetheine attachment site; Region: PP-binding; cl09936 370558004278 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 370558004279 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 370558004280 dimer interface [polypeptide binding]; other site 370558004281 active site 370558004282 CoA binding pocket [chemical binding]; other site 370558004283 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 370558004284 Helix-turn-helix domains; Region: HTH; cl00088 370558004285 enoyl-CoA hydratase; Provisional; Region: PRK07260 370558004286 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 370558004287 substrate binding site [chemical binding]; other site 370558004288 oxyanion hole (OAH) forming residues; other site 370558004289 trimer interface [polypeptide binding]; other site 370558004290 chaperone protein DnaJ; Provisional; Region: PRK14276 370558004291 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 370558004292 HSP70 interaction site [polypeptide binding]; other site 370558004293 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 370558004294 substrate binding site [polypeptide binding]; other site 370558004295 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 370558004296 Zn binding sites [ion binding]; other site 370558004297 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 370558004298 substrate binding site [polypeptide binding]; other site 370558004299 dimer interface [polypeptide binding]; other site 370558004300 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 370558004301 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 370558004302 dimer interface [polypeptide binding]; other site 370558004303 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 370558004304 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 370558004305 HrcA protein C terminal domain; Region: HrcA; pfam01628 370558004306 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 370558004307 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 370558004308 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 370558004309 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 370558004310 catalytic core [active] 370558004311 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 370558004312 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 370558004313 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 370558004314 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 370558004315 GatB domain; Region: GatB_Yqey; cl11497 370558004316 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 370558004317 Amidase; Region: Amidase; cl11426 370558004318 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 370558004319 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 370558004320 Isochorismatase family; Region: Isochorismatase; pfam00857 370558004321 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 370558004322 catalytic triad [active] 370558004323 conserved cis-peptide bond; other site 370558004324 transcriptional repressor CodY; Validated; Region: PRK04158 370558004325 CodY GAF-like domain; Region: CodY; pfam06018 370558004326 Helix-turn-helix domains; Region: HTH; cl00088 370558004327 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 370558004328 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 370558004329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558004330 homodimer interface [polypeptide binding]; other site 370558004331 catalytic residue [active] 370558004332 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 370558004333 Ligand Binding Site [chemical binding]; other site 370558004334 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 370558004335 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 370558004336 active site 370558004337 motif I; other site 370558004338 motif II; other site 370558004339 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 370558004340 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 370558004341 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 370558004342 active site 370558004343 homotetramer interface [polypeptide binding]; other site 370558004344 homodimer interface [polypeptide binding]; other site 370558004345 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 370558004346 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 370558004347 Walker A/P-loop; other site 370558004348 ATP binding site [chemical binding]; other site 370558004349 Q-loop/lid; other site 370558004350 ABC transporter signature motif; other site 370558004351 Walker B; other site 370558004352 D-loop; other site 370558004353 H-loop/switch region; other site 370558004354 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 370558004355 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 370558004356 generic binding surface II; other site 370558004357 ssDNA binding site; other site 370558004358 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 370558004359 ATP binding site [chemical binding]; other site 370558004360 putative Mg++ binding site [ion binding]; other site 370558004361 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 370558004362 nucleotide binding region [chemical binding]; other site 370558004363 ATP-binding site [chemical binding]; other site 370558004364 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 370558004365 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 370558004366 Walker A/P-loop; other site 370558004367 ATP binding site [chemical binding]; other site 370558004368 Q-loop/lid; other site 370558004369 ABC transporter signature motif; other site 370558004370 Walker B; other site 370558004371 D-loop; other site 370558004372 H-loop/switch region; other site 370558004373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004374 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 370558004375 Walker A/P-loop; other site 370558004376 ATP binding site [chemical binding]; other site 370558004377 Q-loop/lid; other site 370558004378 ABC transporter signature motif; other site 370558004379 Walker B; other site 370558004380 D-loop; other site 370558004381 H-loop/switch region; other site 370558004382 Cobalt transport protein; Region: CbiQ; cl00463 370558004383 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 370558004384 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 370558004385 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558004386 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 370558004387 Walker A/P-loop; other site 370558004388 ATP binding site [chemical binding]; other site 370558004389 Q-loop/lid; other site 370558004390 ABC transporter signature motif; other site 370558004391 Walker B; other site 370558004392 D-loop; other site 370558004393 H-loop/switch region; other site 370558004394 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 370558004395 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 370558004396 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004397 Walker A/P-loop; other site 370558004398 ATP binding site [chemical binding]; other site 370558004399 Q-loop/lid; other site 370558004400 ABC transporter signature motif; other site 370558004401 Walker B; other site 370558004402 D-loop; other site 370558004403 H-loop/switch region; other site 370558004404 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 370558004405 ABC transporter signature motif; other site 370558004406 Walker B; other site 370558004407 D-loop; other site 370558004408 H-loop/switch region; other site 370558004409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004410 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 370558004411 ABC-ATPase subunit interface; other site 370558004412 dimer interface [polypeptide binding]; other site 370558004413 putative PBP binding regions; other site 370558004414 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 370558004415 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 370558004416 putative ligand binding residues [chemical binding]; other site 370558004417 Cell surface heme-binding protein Shp; Region: HemeBinding_Shp; pfam11545 370558004418 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 370558004419 Protein of unknown function (DUF1533); Region: DUF1533; pfam07550 370558004420 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 370558004421 heme-binding site [chemical binding]; other site 370558004422 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 370558004423 Leucine-rich repeats; other site 370558004424 Leucine rich repeat; Region: LRR_8; pfam13855 370558004425 Substrate binding site [chemical binding]; other site 370558004426 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 370558004427 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 370558004428 heme-binding site [chemical binding]; other site 370558004429 Surface antigen [General function prediction only]; Region: COG3942 370558004430 NlpC/P60 family; Region: NLPC_P60; cl11438 370558004431 alanine racemase; Reviewed; Region: alr; PRK00053 370558004432 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 370558004433 active site 370558004434 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 370558004435 dimer interface [polypeptide binding]; other site 370558004436 substrate binding site [chemical binding]; other site 370558004437 catalytic residues [active] 370558004438 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 370558004439 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 370558004440 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 370558004441 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 370558004442 nucleotide binding region [chemical binding]; other site 370558004443 ATP-binding site [chemical binding]; other site 370558004444 SEC-C motif; Region: SEC-C; pfam02810 370558004445 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558004446 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558004447 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 370558004448 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 370558004449 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 370558004450 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 370558004451 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 370558004452 active site 370558004453 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 370558004454 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 370558004455 active site turn [active] 370558004456 phosphorylation site [posttranslational modification] 370558004457 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558004458 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 370558004459 HPr interaction site; other site 370558004460 glycerol kinase (GK) interaction site [polypeptide binding]; other site 370558004461 active site 370558004462 phosphorylation site [posttranslational modification] 370558004463 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 370558004464 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 370558004465 substrate binding [chemical binding]; other site 370558004466 active site 370558004467 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 370558004468 lac repressor; Reviewed; Region: lacI; PRK09526 370558004469 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 370558004470 DNA binding site [nucleotide binding] 370558004471 domain linker motif; other site 370558004472 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 370558004473 dimerization interface [polypeptide binding]; other site 370558004474 ligand binding site [chemical binding]; other site 370558004475 sodium binding site [ion binding]; other site 370558004476 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 370558004477 putative RNA binding site [nucleotide binding]; other site 370558004478 Asp23 family; Region: Asp23; cl00574 370558004479 elongation factor P; Validated; Region: PRK00529 370558004480 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 370558004481 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 370558004482 RNA binding site [nucleotide binding]; other site 370558004483 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 370558004484 RNA binding site [nucleotide binding]; other site 370558004485 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 370558004486 catalytic motif [active] 370558004487 Zn binding site [ion binding]; other site 370558004488 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 370558004489 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 370558004490 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 370558004491 active site 370558004492 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 370558004493 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 370558004494 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 370558004495 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 370558004496 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 370558004497 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 370558004498 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 370558004499 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 370558004500 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 370558004501 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 370558004502 dimer interface [polypeptide binding]; other site 370558004503 ssDNA binding site [nucleotide binding]; other site 370558004504 tetramer (dimer of dimers) interface [polypeptide binding]; other site 370558004505 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 370558004506 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 370558004507 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 370558004508 minor groove reading motif; other site 370558004509 helix-hairpin-helix signature motif; other site 370558004510 substrate binding pocket [chemical binding]; other site 370558004511 active site 370558004512 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 370558004513 DNA binding and oxoG recognition site [nucleotide binding] 370558004514 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 370558004515 non-specific DNA binding site [nucleotide binding]; other site 370558004516 salt bridge; other site 370558004517 sequence-specific DNA binding site [nucleotide binding]; other site 370558004518 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 370558004519 catalytic residues [active] 370558004520 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 370558004521 active site 370558004522 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 370558004523 MutS2 homologs in bacteria and 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 also...; Region: ABC_MutS2; cd03280 370558004524 Walker A/P-loop; other site 370558004525 ATP binding site [chemical binding]; other site 370558004526 Q-loop/lid; other site 370558004527 ABC transporter signature motif; other site 370558004528 Walker B; other site 370558004529 D-loop; other site 370558004530 H-loop/switch region; other site 370558004531 Smr domain; Region: Smr; cl02619 370558004532 Colicin V production protein; Region: Colicin_V; cl00567 370558004533 ribonuclease HIII; Provisional; Region: PRK00996 370558004534 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 370558004535 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 370558004536 RNA/DNA hybrid binding site [nucleotide binding]; other site 370558004537 active site 370558004538 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 370558004539 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; cd06462 370558004540 Catalytic site [active] 370558004541 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 370558004542 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 370558004543 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 370558004544 DNA binding site [nucleotide binding] 370558004545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004546 Family description; Region: UvrD_C_2; cl15862 370558004547 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 370558004548 active site 370558004549 DNA polymerase IV; Validated; Region: PRK02406 370558004550 DNA binding site [nucleotide binding] 370558004551 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 370558004552 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 370558004553 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 370558004554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558004555 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 370558004556 amphipathic channel; other site 370558004557 Asn-Pro-Ala signature motifs; other site 370558004558 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 370558004559 putative substrate translocation pore; other site 370558004560 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 370558004561 Helix-turn-helix domains; Region: HTH; cl00088 370558004562 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 370558004563 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 370558004564 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 370558004565 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 370558004566 non-specific DNA binding site [nucleotide binding]; other site 370558004567 salt bridge; other site 370558004568 sequence-specific DNA binding site [nucleotide binding]; other site 370558004569 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 370558004570 non-specific DNA binding site [nucleotide binding]; other site 370558004571 salt bridge; other site 370558004572 sequence-specific DNA binding site [nucleotide binding]; other site 370558004573 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 370558004574 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 370558004575 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 370558004576 DNA binding residues [nucleotide binding] 370558004577 dimer interface [polypeptide binding]; other site 370558004578 Sodium:solute symporter family; Region: SSF; cl00456 370558004579 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 370558004580 active site 370558004581 substrate binding site [chemical binding]; other site 370558004582 catalytic site [active] 370558004583 Helix-turn-helix domains; Region: HTH; cl00088 370558004584 HI0933-like protein; Region: HI0933_like; pfam03486 370558004585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558004586 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 370558004587 intersubunit interface [polypeptide binding]; other site 370558004588 active site 370558004589 catalytic residue [active] 370558004590 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 370558004591 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 370558004592 Nucleoside recognition; Region: Gate; cl00486 370558004593 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 370558004594 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 370558004595 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 370558004596 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 370558004597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558004598 DNA-binding site [nucleotide binding]; DNA binding site 370558004599 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 370558004600 UGMP family protein; Validated; Region: PRK09604 370558004601 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 370558004602 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 370558004603 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 370558004604 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 370558004605 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558004606 Coenzyme A binding pocket [chemical binding]; other site 370558004607 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 370558004608 Glycoprotease family; Region: Peptidase_M22; pfam00814 370558004609 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 370558004610 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 370558004611 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 370558004612 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 370558004613 glutamine synthetase, type I; Region: GlnA; TIGR00653 370558004614 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 370558004615 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 370558004616 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 370558004617 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 370558004618 DNA binding residues [nucleotide binding] 370558004619 putative dimer interface [polypeptide binding]; other site 370558004620 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 370558004621 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 370558004622 Phosphoglycerate kinase; Region: PGK; pfam00162 370558004623 substrate binding site [chemical binding]; other site 370558004624 hinge regions; other site 370558004625 ADP binding site [chemical binding]; other site 370558004626 catalytic site [active] 370558004627 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 370558004628 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 370558004629 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 370558004630 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 370558004631 DAK2 domain; Region: Dak2; cl03685 370558004632 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 370558004633 Asp23 family; Region: Asp23; cl00574 370558004634 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 370558004635 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 370558004636 hypothetical protein; Provisional; Region: PRK08185 370558004637 intersubunit interface [polypeptide binding]; other site 370558004638 active site 370558004639 zinc binding site [ion binding]; other site 370558004640 Na+ binding site [ion binding]; other site 370558004641 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 370558004642 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 370558004643 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 370558004644 CTP synthetase; Validated; Region: pyrG; PRK05380 370558004645 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 370558004646 Catalytic site [active] 370558004647 active site 370558004648 UTP binding site [chemical binding]; other site 370558004649 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 370558004650 active site 370558004651 putative oxyanion hole; other site 370558004652 catalytic triad [active] 370558004653 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 370558004654 trigger factor; Provisional; Region: tig; PRK01490 370558004655 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 370558004656 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 370558004657 Mechanosensitive ion channel; Region: MS_channel; pfam00924 370558004658 Protein of unknown function (DUF436); Region: DUF436; cl01860 370558004659 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 370558004660 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 370558004661 substrate binding site [chemical binding]; other site 370558004662 dimer interface [polypeptide binding]; other site 370558004663 ATP binding site [chemical binding]; other site 370558004664 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 370558004665 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 370558004666 dimerization interface 3.5A [polypeptide binding]; other site 370558004667 active site 370558004668 Glycerate kinase family; Region: Gly_kinase; cl00841 370558004669 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 370558004670 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 370558004671 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 370558004672 ATP binding site [chemical binding]; other site 370558004673 putative Mg++ binding site [ion binding]; other site 370558004674 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 370558004675 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 370558004676 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 370558004677 HsdM N-terminal domain; Region: HsdM_N; pfam12161 370558004678 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 370558004679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558004680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 370558004681 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 370558004682 active site 370558004683 phosphorylation site [posttranslational modification] 370558004684 intermolecular recognition site; other site 370558004685 dimerization interface [polypeptide binding]; other site 370558004686 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 370558004687 DNA binding residues [nucleotide binding] 370558004688 dimerization interface [polypeptide binding]; other site 370558004689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 370558004690 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 370558004691 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558004692 Walker A/P-loop; other site 370558004693 ATP binding site [chemical binding]; other site 370558004694 Q-loop/lid; other site 370558004695 ABC transporter signature motif; other site 370558004696 Walker B; other site 370558004697 D-loop; other site 370558004698 H-loop/switch region; other site 370558004699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004700 ABC transporter signature motif; other site 370558004701 Walker B; other site 370558004702 D-loop; other site 370558004703 H-loop/switch region; other site 370558004704 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 370558004705 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 370558004706 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 370558004707 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558004708 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 370558004709 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 370558004710 P-loop; other site 370558004711 active site 370558004712 phosphorylation site [posttranslational modification] 370558004713 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 370558004714 methionine cluster; other site 370558004715 active site 370558004716 phosphorylation site [posttranslational modification] 370558004717 metal binding site [ion binding]; metal-binding site 370558004718 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 370558004719 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 370558004720 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 370558004721 putative substrate binding site [chemical binding]; other site 370558004722 putative ATP binding site [chemical binding]; other site 370558004723 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 370558004724 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 370558004725 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 370558004726 Helix-turn-helix domains; Region: HTH; cl00088 370558004727 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 370558004728 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 370558004729 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 370558004730 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 370558004731 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 370558004732 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 370558004733 23S rRNA interface [nucleotide binding]; other site 370558004734 L3 interface [polypeptide binding]; other site 370558004735 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 370558004736 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 370558004737 YacP-like NYN domain; Region: NYN_YacP; cl01491 370558004738 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 370558004739 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 370558004740 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 370558004741 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 370558004742 active site 370558004743 metal binding site [ion binding]; metal-binding site 370558004744 dimerization interface [polypeptide binding]; other site 370558004745 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 370558004746 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 370558004747 active site 370558004748 HIGH motif; other site 370558004749 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 370558004750 KMSKS motif; other site 370558004751 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 370558004752 tRNA binding surface [nucleotide binding]; other site 370558004753 anticodon binding site; other site 370558004754 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 370558004755 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 370558004756 trimer interface [polypeptide binding]; other site 370558004757 active site 370558004758 substrate binding site [chemical binding]; other site 370558004759 CoA binding site [chemical binding]; other site 370558004760 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 370558004761 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 370558004762 RNase E interface [polypeptide binding]; other site 370558004763 trimer interface [polypeptide binding]; other site 370558004764 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 370558004765 RNase E interface [polypeptide binding]; other site 370558004766 trimer interface [polypeptide binding]; other site 370558004767 active site 370558004768 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 370558004769 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 370558004770 RNA binding site [nucleotide binding]; other site 370558004771 domain interface; other site 370558004772 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 370558004773 active site 370558004774 intersubunit interactions; other site 370558004775 catalytic residue [active] 370558004776 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 370558004777 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 370558004778 P-loop; other site 370558004779 active site 370558004780 phosphorylation site [posttranslational modification] 370558004781 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 370558004782 PRD domain; Region: PRD; cl15445 370558004783 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 370558004784 P-loop; other site 370558004785 active site 370558004786 phosphorylation site [posttranslational modification] 370558004787 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 370558004788 active site 370558004789 phosphorylation site [posttranslational modification] 370558004790 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 370558004791 16S/18S rRNA binding site [nucleotide binding]; other site 370558004792 S13e-L30e interaction site [polypeptide binding]; other site 370558004793 25S rRNA binding site [nucleotide binding]; other site 370558004794 Helix-turn-helix domains; Region: HTH; cl00088 370558004795 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 370558004796 active site 370558004797 catalytic residues [active] 370558004798 metal binding site [ion binding]; metal-binding site 370558004799 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 370558004800 Helix-turn-helix domains; Region: HTH; cl00088 370558004801 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 370558004802 DNA polymerase III PolC; Validated; Region: polC; PRK00448 370558004803 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 370558004804 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 370558004805 generic binding surface II; other site 370558004806 generic binding surface I; other site 370558004807 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 370558004808 active site 370558004809 substrate binding site [chemical binding]; other site 370558004810 catalytic site [active] 370558004811 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 370558004812 prolyl-tRNA synthetase; Provisional; Region: PRK09194 370558004813 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 370558004814 dimer interface [polypeptide binding]; other site 370558004815 motif 1; other site 370558004816 active site 370558004817 motif 2; other site 370558004818 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 370558004819 putative deacylase active site [active] 370558004820 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 370558004821 active site 370558004822 motif 3; other site 370558004823 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 370558004824 anticodon binding site; other site 370558004825 RIP metalloprotease RseP; Region: TIGR00054 370558004826 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 370558004827 active site 370558004828 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 370558004829 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 370558004830 putative substrate binding region [chemical binding]; other site 370558004831 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 370558004832 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 370558004833 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 370558004834 catalytic residue [active] 370558004835 putative FPP diphosphate binding site; other site 370558004836 putative FPP binding hydrophobic cleft; other site 370558004837 dimer interface [polypeptide binding]; other site 370558004838 putative IPP diphosphate binding site; other site 370558004839 Preprotein translocase subunit; Region: YajC; cl00806 370558004840 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 370558004841 catalytic residues [active] 370558004842 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 370558004843 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 370558004844 carbohydrate binding site [chemical binding]; other site 370558004845 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 370558004846 carbohydrate binding site [chemical binding]; other site 370558004847 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 370558004848 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 370558004849 Ca binding site [ion binding]; other site 370558004850 active site 370558004851 catalytic site [active] 370558004852 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 370558004853 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 370558004854 Ca binding site [ion binding]; other site 370558004855 active site 370558004856 catalytic site [active] 370558004857 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 370558004858 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 370558004859 Walker A/P-loop; other site 370558004860 ATP binding site [chemical binding]; other site 370558004861 Q-loop/lid; other site 370558004862 ABC transporter signature motif; other site 370558004863 Walker B; other site 370558004864 D-loop; other site 370558004865 H-loop/switch region; other site 370558004866 TOBE domain; Region: TOBE_2; cl01440 370558004867 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 370558004868 Helix-turn-helix domains; Region: HTH; cl00088 370558004869 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 370558004870 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 370558004871 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 370558004872 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 370558004873 putative active site [active] 370558004874 dimerization interface [polypeptide binding]; other site 370558004875 putative tRNAtyr binding site [nucleotide binding]; other site 370558004876 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 370558004877 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 370558004878 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 370558004879 synthetase active site [active] 370558004880 NTP binding site [chemical binding]; other site 370558004881 metal binding site [ion binding]; metal-binding site 370558004882 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 370558004883 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 370558004884 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 370558004885 flagellar motor switch protein; Validated; Region: PRK08119 370558004886 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 370558004887 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 370558004888 putative catalytic site [active] 370558004889 putative metal binding site [ion binding]; other site 370558004890 putative phosphate binding site [ion binding]; other site 370558004891 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558004892 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 370558004893 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 370558004894 active site turn [active] 370558004895 phosphorylation site [posttranslational modification] 370558004896 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 370558004897 HPr interaction site; other site 370558004898 glycerol kinase (GK) interaction site [polypeptide binding]; other site 370558004899 active site 370558004900 phosphorylation site [posttranslational modification] 370558004901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 370558004902 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 370558004903 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 370558004904 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 370558004905 S-adenosylmethionine binding site [chemical binding]; other site 370558004906 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 370558004907 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 370558004908 Integrase core domain; Region: rve_3; cl15866 370558004909 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558004910 Transposase domain (DUF772); Region: DUF772; cl15789 370558004911 aminodeoxychorismate synthase; Provisional; Region: PRK07508 370558004912 chorismate binding enzyme; Region: Chorismate_bind; cl10555 370558004913 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 370558004914 substrate-cofactor binding pocket; other site 370558004915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 370558004916 catalytic residue [active] 370558004917 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 370558004918 Glutamine amidotransferase class-I; Region: GATase; pfam00117 370558004919 glutamine binding [chemical binding]; other site 370558004920 catalytic triad [active] 370558004921 recombination factor protein RarA; Reviewed; Region: PRK13342 370558004922 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 370558004923 Walker A motif; other site 370558004924 ATP binding site [chemical binding]; other site 370558004925 Walker B motif; other site 370558004926 arginine finger; other site 370558004927 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 370558004928 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 370558004929 Coenzyme A binding pocket [chemical binding]; other site 370558004930 topology modulation protein; Provisional; Region: PRK07261 370558004931 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558004932 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 370558004933 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 370558004934 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 370558004935 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 370558004936 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 370558004937 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 370558004938 dimer interface [polypeptide binding]; other site 370558004939 conserved gate region; other site 370558004940 putative PBP binding loops; other site 370558004941 ABC-ATPase subunit interface; other site 370558004942 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 370558004943 dimer interface [polypeptide binding]; other site 370558004944 conserved gate region; other site 370558004945 putative PBP binding loops; other site 370558004946 ABC-ATPase subunit interface; other site 370558004947 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 370558004948 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 370558004949 Walker A/P-loop; other site 370558004950 ATP binding site [chemical binding]; other site 370558004951 Q-loop/lid; other site 370558004952 ABC transporter signature motif; other site 370558004953 Walker B; other site 370558004954 D-loop; other site 370558004955 H-loop/switch region; other site 370558004956 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 370558004957 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 370558004958 Walker A/P-loop; other site 370558004959 ATP binding site [chemical binding]; other site 370558004960 Q-loop/lid; other site 370558004961 ABC transporter signature motif; other site 370558004962 Walker B; other site 370558004963 D-loop; other site 370558004964 H-loop/switch region; other site 370558004965 CsbD-like; Region: CsbD; cl15799 370558004966 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 370558004967 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 370558004968 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 370558004969 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 370558004970 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 370558004971 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 370558004972 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 370558004973 metal binding site [ion binding]; metal-binding site 370558004974 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 370558004975 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 370558004976 Transposase [DNA replication, recombination, and repair]; Region: COG5433 370558004977 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 370558004978 putative active site [active] 370558004979 catalytic triad [active] 370558004980 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 370558004981 PA/protease domain interface [polypeptide binding]; other site 370558004982 putative integrin binding motif; other site 370558004983 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 370558004984 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 370558004985 FlgD Ig-like domain; Region: FlgD_ig; cl15790 370558004986 Transposase domain (DUF772); Region: DUF772; cl15789 370558004987 Transposase domain (DUF772); Region: DUF772; cl15789 370558004988 sic protein; Region: SIC; pfam03482 370558004989 Spc7 kinetochore protein; Region: Spc7; pfam08317 370558004990 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 370558004991 Helix-turn-helix domains; Region: HTH; cl00088 370558004992 Helix-turn-helix domains; Region: HTH; cl00088 370558004993 M protein trans-acting positive regulator (MGA) PRD domain; Region: PRD_Mga; pfam08270 370558004994 ribonuclease III; Provisional; Region: PRK14718 370558004995 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 370558004996 Surface antigen [General function prediction only]; Region: COG3942 370558004997 NlpC/P60 family; Region: NLPC_P60; cl11438 370558004998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 370558004999 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 370558005000 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 370558005001 dimer interface [polypeptide binding]; other site 370558005002 phosphorylation site [posttranslational modification] 370558005003 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 370558005004 ATP binding site [chemical binding]; other site 370558005005 Mg2+ binding site [ion binding]; other site 370558005006 G-X-G motif; other site 370558005007 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 370558005008 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 370558005009 active site 370558005010 phosphorylation site [posttranslational modification] 370558005011 intermolecular recognition site; other site 370558005012 dimerization interface [polypeptide binding]; other site 370558005013 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 370558005014 DNA binding site [nucleotide binding] 370558005015 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 370558005016 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 370558005017 FtsX-like permease family; Region: FtsX; cl15850 370558005018 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 370558005019 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 370558005020 Walker A/P-loop; other site 370558005021 ATP binding site [chemical binding]; other site 370558005022 Q-loop/lid; other site 370558005023 ABC transporter signature motif; other site 370558005024 Walker B; other site 370558005025 D-loop; other site 370558005026 H-loop/switch region; other site 370558005027 multidrug resistance protein MdtN; Provisional; Region: PRK10476 370558005028 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 370558005029 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 370558005030 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 370558005031 cell division protein FtsN; Provisional; Region: PRK12757 370558005032 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558005033 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558005034 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558005035 Fibronectin binding repeat; Region: Fn_bind; pfam02986 370558005036 Gram positive anchor; Region: Gram_pos_anchor; cl15427 370558005037 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 370558005038 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 370558005039 metal ion-dependent adhesion site (MIDAS); other site 370558005040 foldase protein PrsA; Reviewed; Region: PRK12450 370558005041 Spi protease inhibitor; Region: Inhibitor_I69; pfam13734 370558005042 Spi protease inhibitor; Region: Inhibitor_I69; pfam13734 370558005043 Peptidase C10 family; Region: Peptidase_C10; pfam01640 370558005044 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 370558005045 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 370558005046 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 370558005047 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 370558005048 tetramer interfaces [polypeptide binding]; other site 370558005049 binuclear metal-binding site [ion binding]; other site 370558005050 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 370558005051 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 370558005052 dimer interface [polypeptide binding]; other site 370558005053 active site 370558005054 metal binding site [ion binding]; metal-binding site 370558005055 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 370558005056 active site 370558005057 intersubunit interactions; other site 370558005058 catalytic residue [active] 370558005059 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 370558005060 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 370558005061 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558005062 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 370558005063 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 370558005064 active site 370558005065 P-loop; other site 370558005066 phosphorylation site [posttranslational modification] 370558005067 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 370558005068 active site 370558005069 methionine cluster; other site 370558005070 phosphorylation site [posttranslational modification] 370558005071 metal binding site [ion binding]; metal-binding site 370558005072 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 370558005073 Helix-turn-helix domains; Region: HTH; cl00088 370558005074 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 370558005075 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 370558005076 Helix-turn-helix domains; Region: HTH; cl00088 370558005077 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 370558005078 active site 370558005079 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 370558005080 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 370558005081 FeS/SAM binding site; other site 370558005082 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 370558005083 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 370558005084 Transglycosylase; Region: Transgly; cl07896 370558005085 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 370558005086 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 370558005087 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 370558005088 homotrimer interaction site [polypeptide binding]; other site 370558005089 putative active site [active] 370558005090 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 370558005091 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 370558005092 active site 370558005093 Predicted membrane protein [Function unknown]; Region: COG4640 370558005094 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 370558005095 Peptidase family C69; Region: Peptidase_C69; pfam03577 370558005096 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 370558005097 non-specific DNA binding site [nucleotide binding]; other site 370558005098 salt bridge; other site 370558005099 sequence-specific DNA binding site [nucleotide binding]; other site 370558005100 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 370558005101 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 370558005102 ring oligomerisation interface [polypeptide binding]; other site 370558005103 ATP/Mg binding site [chemical binding]; other site 370558005104 stacking interactions; other site 370558005105 hinge regions; other site 370558005106 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 370558005107 oligomerisation interface [polypeptide binding]; other site 370558005108 mobile loop; other site 370558005109 roof hairpin; other site 370558005110 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 370558005111 Clp amino terminal domain; Region: Clp_N; pfam02861 370558005112 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 370558005113 Walker A motif; other site 370558005114 ATP binding site [chemical binding]; other site 370558005115 Walker B motif; other site 370558005116 arginine finger; other site 370558005117 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 370558005118 Walker A motif; other site 370558005119 ATP binding site [chemical binding]; other site 370558005120 Walker B motif; other site 370558005121 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 370558005122 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 370558005123 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 370558005124 DNA-binding site [nucleotide binding]; DNA binding site 370558005125 RNA-binding motif; other site 370558005126 peroxiredoxin; Region: AhpC; TIGR03137 370558005127 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 370558005128 dimer interface [polypeptide binding]; other site 370558005129 decamer (pentamer of dimers) interface [polypeptide binding]; other site 370558005130 catalytic triad [active] 370558005131 peroxidatic and resolving cysteines [active] 370558005132 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 370558005133 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 370558005134 catalytic residue [active] 370558005135 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 370558005136 catalytic residues [active] 370558005137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558005138 imidazolonepropionase; Validated; Region: PRK09356 370558005139 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 370558005140 active site 370558005141 urocanate hydratase; Provisional; Region: PRK05414 370558005142 Glutamate formiminotransferase [Amino acid transport and metabolism]; Region: COG3643 370558005143 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 370558005144 Formiminotransferase domain; Region: FTCD; pfam02971 370558005145 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 370558005146 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 370558005147 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 370558005148 Potassium binding sites [ion binding]; other site 370558005149 Cesium cation binding sites [ion binding]; other site 370558005150 HutD; Region: HutD; cl01532 370558005151 amino acid transporter; Region: 2A0306; TIGR00909 370558005152 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 370558005153 active sites [active] 370558005154 tetramer interface [polypeptide binding]; other site 370558005155 Arginase family; Region: Arginase; cl00306 370558005156 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 370558005157 Predicted ATPase [General function prediction only]; Region: COG3899 370558005158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558005159 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 370558005160 rRNA interaction site [nucleotide binding]; other site 370558005161 S8 interaction site; other site 370558005162 putative laminin-1 binding site; other site 370558005163 elongation factor Ts; Provisional; Region: tsf; PRK09377 370558005164 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 370558005165 Elongation factor TS; Region: EF_TS; pfam00889 370558005166 Elongation factor TS; Region: EF_TS; pfam00889 370558005167 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 370558005168 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 370558005169 active site 370558005170 Zn binding site [ion binding]; other site 370558005171 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 370558005172 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 370558005173 Ca binding site [ion binding]; other site 370558005174 active site 370558005175 catalytic site [active] 370558005176 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 370558005177 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 370558005178 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 370558005179 active site turn [active] 370558005180 phosphorylation site [posttranslational modification] 370558005181 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 370558005182 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 370558005183 HPr interaction site; other site 370558005184 glycerol kinase (GK) interaction site [polypeptide binding]; other site 370558005185 active site 370558005186 phosphorylation site [posttranslational modification] 370558005187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 370558005188 DNA-binding site [nucleotide binding]; DNA binding site 370558005189 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 370558005190 UTRA domain; Region: UTRA; cl01230 370558005191 Helix-turn-helix domains; Region: HTH; cl00088 370558005192 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 370558005193 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_12; cd07255 370558005194 putative metal binding site [ion binding]; other site 370558005195 Protein of unknown function (DUF328); Region: DUF328; cl01143 370558005196 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 370558005197 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 370558005198 Predicted acetyltransferase [General function prediction only]; Region: COG3981 370558005199 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 370558005200 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 370558005201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558005202 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 370558005203 ATP cone domain; Region: ATP-cone; pfam03477 370558005204 Class III ribonucleotide reductase; Region: RNR_III; cd01675 370558005205 effector binding site; other site 370558005206 active site 370558005207 Zn binding site [ion binding]; other site 370558005208 glycine loop; other site 370558005209 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 370558005210 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 370558005211 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 370558005212 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 370558005213 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 370558005214 ArsC family; Region: ArsC; pfam03960 370558005215 putative catalytic residues [active] 370558005216 thiol/disulfide switch; other site 370558005217 recombinase A; Provisional; Region: recA; PRK09354 370558005218 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 370558005219 hexamer interface [polypeptide binding]; other site 370558005220 Walker A motif; other site 370558005221 ATP binding site [chemical binding]; other site 370558005222 Walker B motif; other site 370558005223 competence damage-inducible protein A; Provisional; Region: PRK00549 370558005224 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 370558005225 putative MPT binding site; other site 370558005226 Competence-damaged protein; Region: CinA; cl00666 370558005227 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 370558005228 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 370558005229 RuvA N terminal domain; Region: RuvA_N; pfam01330 370558005230 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 370558005231 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 370558005232 putative substrate translocation pore; other site 370558005233 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 370558005234 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 370558005235 ATP binding site [chemical binding]; other site 370558005236 Mg2+ binding site [ion binding]; other site 370558005237 G-X-G motif; other site 370558005238 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 370558005239 ATP binding site [chemical binding]; other site 370558005240 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 370558005241 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 370558005242 MutS domain I; Region: MutS_I; pfam01624 370558005243 MutS domain II; Region: MutS_II; pfam05188 370558005244 MutS family domain IV; Region: MutS_IV; pfam05190 370558005245 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 370558005246 Walker A/P-loop; other site 370558005247 ATP binding site [chemical binding]; other site 370558005248 Q-loop/lid; other site 370558005249 ABC transporter signature motif; other site 370558005250 Walker B; other site 370558005251 D-loop; other site 370558005252 H-loop/switch region; other site 370558005253 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 370558005254 arginine repressor; Region: argR_whole; TIGR01529 370558005255 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 370558005256 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 370558005257 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 370558005258 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 370558005259 active site 370558005260 HIGH motif; other site 370558005261 KMSK motif region; other site 370558005262 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 370558005263 tRNA binding surface [nucleotide binding]; other site 370558005264 anticodon binding site; other site 370558005265 Enterocin A Immunity; Region: EntA_Immun; pfam08951 370558005266 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005267 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005268 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 370558005269 Uncharacterized conserved protein [Function unknown]; Region: COG1284 370558005270 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005271 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 370558005272 Uncharacterized conserved protein [Function unknown]; Region: COG1284 370558005273 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005274 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005275 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 370558005276 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 370558005277 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 370558005278 dimer interface [polypeptide binding]; other site 370558005279 anticodon binding site; other site 370558005280 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 370558005281 homodimer interface [polypeptide binding]; other site 370558005282 motif 1; other site 370558005283 active site 370558005284 motif 2; other site 370558005285 GAD domain; Region: GAD; pfam02938 370558005286 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 370558005287 motif 3; other site 370558005288 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 370558005289 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 370558005290 dimer interface [polypeptide binding]; other site 370558005291 motif 1; other site 370558005292 active site 370558005293 motif 2; other site 370558005294 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 370558005295 anticodon binding site; other site 370558005296 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 370558005297 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 370558005298 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 370558005299 Cadmium resistance transporter; Region: Cad; cl04177 370558005300 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 370558005301 putative DNA binding site [nucleotide binding]; other site 370558005302 putative Zn2+ binding site [ion binding]; other site 370558005303 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 370558005304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558005305 AAA domain; Region: AAA_22; pfam13401 370558005306 Domain of unknown function (DUF368); Region: DUF368; cl00893 370558005307 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 370558005308 putative active site [active] 370558005309 putative CoA binding site [chemical binding]; other site 370558005310 nudix motif; other site 370558005311 metal binding site [ion binding]; metal-binding site 370558005312 Helix-turn-helix domains; Region: HTH; cl00088 370558005313 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 370558005314 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 370558005315 Predicted membrane protein [Function unknown]; Region: COG1511 370558005316 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 370558005317 ABC-2 type transporter; Region: ABC2_membrane; cl11417 370558005318 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 370558005319 Helix-turn-helix domains; Region: HTH; cl00088 370558005320 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 370558005321 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 370558005322 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 370558005323 RNA binding surface [nucleotide binding]; other site 370558005324 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 370558005325 replicative DNA helicase; Provisional; Region: PRK05748 370558005326 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 370558005327 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 370558005328 Walker A motif; other site 370558005329 ATP binding site [chemical binding]; other site 370558005330 Walker B motif; other site 370558005331 DNA binding loops [nucleotide binding] 370558005332 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 370558005333 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 370558005334 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 370558005335 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 370558005336 DHH family; Region: DHH; pfam01368 370558005337 DHHA1 domain; Region: DHHA1; pfam02272 370558005338 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 370558005339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558005340 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 370558005341 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 370558005342 nudix motif; other site 370558005343 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 370558005344 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 370558005345 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 370558005346 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 370558005347 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 370558005348 putative L-serine binding site [chemical binding]; other site 370558005349 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 370558005350 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 370558005351 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 370558005352 Cobalt transport protein; Region: CbiQ; cl00463 370558005353 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 370558005354 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 370558005355 Walker A/P-loop; other site 370558005356 ATP binding site [chemical binding]; other site 370558005357 Q-loop/lid; other site 370558005358 ABC transporter signature motif; other site 370558005359 Walker B; other site 370558005360 D-loop; other site 370558005361 H-loop/switch region; other site 370558005362 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 370558005363 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 370558005364 Walker A/P-loop; other site 370558005365 ATP binding site [chemical binding]; other site 370558005366 Q-loop/lid; other site 370558005367 ABC transporter signature motif; other site 370558005368 Walker B; other site 370558005369 D-loop; other site 370558005370 H-loop/switch region; other site 370558005371 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 370558005372 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 370558005373 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 370558005374 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 370558005375 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 370558005376 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 370558005377 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 370558005378 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 370558005379 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 370558005380 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 370558005381 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 370558005382 DXD motif; other site 370558005383 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 370558005384 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 370558005385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 370558005386 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 370558005387 active site 370558005388 tetramer interface; other site 370558005389 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 370558005390 recombination protein F; Reviewed; Region: recF; PRK00064 370558005391 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 370558005392 Walker A/P-loop; other site 370558005393 ATP binding site [chemical binding]; other site 370558005394 Q-loop/lid; other site 370558005395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558005396 ABC transporter signature motif; other site 370558005397 Walker B; other site 370558005398 D-loop; other site 370558005399 H-loop/switch region; other site 370558005400 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 370558005401 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 370558005402 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 370558005403 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 370558005404 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 370558005405 active site 370558005406 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 370558005407 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 370558005408 active site 370558005409 HIGH motif; other site 370558005410 dimer interface [polypeptide binding]; other site 370558005411 KMSKS motif; other site 370558005412 Uncharacterized conserved protein [Function unknown]; Region: COG1284 370558005413 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005414 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 370558005415 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 370558005416 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 370558005417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 370558005418 Walker A/P-loop; other site 370558005419 ATP binding site [chemical binding]; other site 370558005420 Q-loop/lid; other site 370558005421 ABC transporter signature motif; other site 370558005422 Walker B; other site 370558005423 D-loop; other site 370558005424 H-loop/switch region; other site 370558005425 ABC transporter; Region: ABC_tran_2; pfam12848 370558005426 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 370558005427 Predicted membrane protein [Function unknown]; Region: COG4485 370558005428 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 370558005429 Helix-turn-helix domains; Region: HTH; cl00088 370558005430 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 370558005431 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 370558005432 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 370558005433 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 370558005434 protein binding site [polypeptide binding]; other site 370558005435 ParB-like partition proteins; Region: parB_part; TIGR00180 370558005436 ParB-like nuclease domain; Region: ParBc; cl02129 370558005437 Helix-turn-helix domains; Region: HTH; cl00088