-- dump date 20140620_081058 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1311000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1311000002 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 1311000003 Walker A motif; other site 1311000004 ATP binding site [chemical binding]; other site 1311000005 Walker B motif; other site 1311000006 arginine finger; other site 1311000007 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 1311000008 DnaA box-binding interface [nucleotide binding]; other site 1311000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1311000010 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 1311000011 putative DNA binding surface [nucleotide binding]; other site 1311000012 dimer interface [polypeptide binding]; other site 1311000013 beta-clamp/clamp loader binding surface; other site 1311000014 beta-clamp/translesion DNA polymerase binding surface; other site 1311000015 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1311000016 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1311000017 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 1311000018 GTP-binding protein YchF; Reviewed; Region: PRK09601 1311000019 YchF GTPase; Region: YchF; cd01900 1311000020 G1 box; other site 1311000021 GTP/Mg2+ binding site [chemical binding]; other site 1311000022 Switch I region; other site 1311000023 G2 box; other site 1311000024 Switch II region; other site 1311000025 G3 box; other site 1311000026 G4 box; other site 1311000027 G5 box; other site 1311000028 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 1311000029 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 1311000030 putative active site [active] 1311000031 catalytic residue [active] 1311000032 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1311000033 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1311000034 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 1311000035 ATP binding site [chemical binding]; other site 1311000036 putative Mg++ binding site [ion binding]; other site 1311000037 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 1311000038 nucleotide binding region [chemical binding]; other site 1311000039 ATP-binding site [chemical binding]; other site 1311000040 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1311000041 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 1311000042 RNA binding surface [nucleotide binding]; other site 1311000043 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1311000044 Septum formation initiator; Region: DivIC; pfam04977 1311000045 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1311000046 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1311000047 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 1311000048 Ligand Binding Site [chemical binding]; other site 1311000049 TilS substrate C-terminal domain; Region: TilS_C; smart00977 1311000050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311000051 active site 1311000052 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1311000053 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 1311000054 Walker A motif; other site 1311000055 ATP binding site [chemical binding]; other site 1311000056 Walker B motif; other site 1311000057 arginine finger; other site 1311000058 Peptidase family M41; Region: Peptidase_M41; pfam01434 1311000059 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1311000060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1311000061 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1311000062 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1311000063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1311000064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311000065 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1311000066 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1311000067 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1311000068 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1311000069 Walker A/P-loop; other site 1311000070 ATP binding site [chemical binding]; other site 1311000071 Q-loop/lid; other site 1311000072 ABC transporter signature motif; other site 1311000073 Walker B; other site 1311000074 D-loop; other site 1311000075 H-loop/switch region; other site 1311000076 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1311000077 Predicted transcriptional regulators [Transcription]; Region: COG1695 1311000078 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1311000079 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1311000080 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 1311000081 active site 1311000082 dimer interface [polypeptide binding]; other site 1311000083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 1311000084 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 1311000085 dimer interface [polypeptide binding]; other site 1311000086 motif 1; other site 1311000087 active site 1311000088 motif 2; other site 1311000089 motif 3; other site 1311000090 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1311000091 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1311000092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1311000093 DALR anticodon binding domain; Region: DALR_1; pfam05746 1311000094 hypothetical protein; Provisional; Region: PRK02539 1311000095 Predicted membrane protein [Function unknown]; Region: COG3326 1311000096 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 1311000097 amphipathic channel; other site 1311000098 Asn-Pro-Ala signature motifs; other site 1311000099 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1311000100 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311000101 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311000102 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311000103 putative transposase OrfB; Reviewed; Region: PHA02517 1311000104 HTH-like domain; Region: HTH_21; pfam13276 1311000105 Integrase core domain; Region: rve; pfam00665 1311000106 Integrase core domain; Region: rve_3; cl15866 1311000107 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1311000108 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 1311000109 TPP-binding site [chemical binding]; other site 1311000110 dimer interface [polypeptide binding]; other site 1311000111 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 1311000112 PYR/PP interface [polypeptide binding]; other site 1311000113 dimer interface [polypeptide binding]; other site 1311000114 TPP binding site [chemical binding]; other site 1311000115 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1311000116 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1311000117 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1311000118 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1311000119 Walker A/P-loop; other site 1311000120 ATP binding site [chemical binding]; other site 1311000121 Q-loop/lid; other site 1311000122 ABC transporter signature motif; other site 1311000123 Walker B; other site 1311000124 D-loop; other site 1311000125 H-loop/switch region; other site 1311000126 Glutamate 5-kinase [Amino acid transport and metabolism]; Region: ProB; COG0263 1311000127 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 1311000128 nucleotide binding site [chemical binding]; other site 1311000129 homotetrameric interface [polypeptide binding]; other site 1311000130 putative phosphate binding site [ion binding]; other site 1311000131 putative allosteric binding site; other site 1311000132 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1311000133 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1311000134 putative catalytic cysteine [active] 1311000135 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1311000136 MraW methylase family; Region: Methyltransf_5; pfam01795 1311000137 Protein required for the initiation of cell division [Cell division and chromosome partitioning]; Region: FtsL; COG4839 1311000138 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1311000139 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1311000140 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1311000141 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 1311000142 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 1311000143 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1311000144 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 1311000145 Mg++ binding site [ion binding]; other site 1311000146 putative catalytic motif [active] 1311000147 putative substrate binding site [chemical binding]; other site 1311000148 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 1311000149 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1311000150 ATP binding site [chemical binding]; other site 1311000151 Mg++ binding site [ion binding]; other site 1311000152 motif III; other site 1311000153 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 1311000154 nucleotide binding region [chemical binding]; other site 1311000155 ATP-binding site [chemical binding]; other site 1311000156 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311000157 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 1311000158 substrate binding pocket [chemical binding]; other site 1311000159 membrane-bound complex binding site; other site 1311000160 hinge residues; other site 1311000161 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311000162 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 1311000163 dimer interface [polypeptide binding]; other site 1311000164 conserved gate region; other site 1311000165 putative PBP binding loops; other site 1311000166 ABC-ATPase subunit interface; other site 1311000167 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311000168 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311000169 Walker A/P-loop; other site 1311000170 ATP binding site [chemical binding]; other site 1311000171 Q-loop/lid; other site 1311000172 ABC transporter signature motif; other site 1311000173 Walker B; other site 1311000174 D-loop; other site 1311000175 H-loop/switch region; other site 1311000176 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1311000177 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1311000178 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311000179 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311000180 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1311000181 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 1311000182 active site 1311000183 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 1311000184 active site 1311000185 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1311000186 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 1311000187 homodimer interface [polypeptide binding]; other site 1311000188 NAD binding pocket [chemical binding]; other site 1311000189 ATP binding pocket [chemical binding]; other site 1311000190 Mg binding site [ion binding]; other site 1311000191 active-site loop [active] 1311000192 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 1311000193 trimer interface [polypeptide binding]; other site 1311000194 active site 1311000195 G bulge; other site 1311000196 Transglycosylase; Region: Transgly; pfam00912 1311000197 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1311000198 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1311000199 Holliday junction-specific endonuclease; Reviewed; Region: recU; PRK02234 1311000200 hypothetical protein; Provisional; Region: PRK13660 1311000201 cell division protein GpsB; Provisional; Region: PRK14127 1311000202 DivIVA domain; Region: DivI1A_domain; TIGR03544 1311000203 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1311000204 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1311000205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1311000206 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1311000207 hypothetical protein; Provisional; Region: PRK00106 1311000208 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311000209 Zn2+ binding site [ion binding]; other site 1311000210 Mg2+ binding site [ion binding]; other site 1311000211 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1311000212 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1311000213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1311000214 Histidine kinase; Region: HisKA_3; pfam07730 1311000215 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1311000216 Mg2+ binding site [ion binding]; other site 1311000217 G-X-G motif; other site 1311000218 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1311000219 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 1311000220 active site 1311000221 phosphorylation site [posttranslational modification] 1311000222 intermolecular recognition site; other site 1311000223 dimerization interface [polypeptide binding]; other site 1311000224 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 1311000225 DNA binding residues [nucleotide binding] 1311000226 dimerization interface [polypeptide binding]; other site 1311000227 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1311000228 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1311000229 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 1311000230 catalytic site [active] 1311000231 G-X2-G-X-G-K; other site 1311000232 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1311000233 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 1311000234 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 1311000235 ATP binding site [chemical binding]; other site 1311000236 putative Mg++ binding site [ion binding]; other site 1311000237 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 1311000238 ATP-binding site [chemical binding]; other site 1311000239 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1311000240 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1311000241 putative active site [active] 1311000242 substrate binding site [chemical binding]; other site 1311000243 putative cosubstrate binding site; other site 1311000244 catalytic site [active] 1311000245 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1311000246 substrate binding site [chemical binding]; other site 1311000247 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1311000248 NusB family; Region: NusB; pfam01029 1311000249 putative RNA binding site [nucleotide binding]; other site 1311000250 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 1311000251 S-adenosylmethionine binding site [chemical binding]; other site 1311000252 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 1311000253 active site 1311000254 Protein phosphatase 2C; Region: PP2C; pfam00481 1311000255 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1311000256 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1311000257 active site 1311000258 ATP binding site [chemical binding]; other site 1311000259 substrate binding site [chemical binding]; other site 1311000260 activation loop (A-loop); other site 1311000261 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 1311000262 PASTA domain; Region: PASTA; smart00740 1311000263 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 1311000264 Predicted membrane protein [Function unknown]; Region: COG4758 1311000265 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1311000266 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1311000267 Histidine kinase; Region: HisKA_3; pfam07730 1311000268 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 1311000269 ATP binding site [chemical binding]; other site 1311000270 Mg2+ binding site [ion binding]; other site 1311000271 G-X-G motif; other site 1311000272 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1311000273 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 1311000274 active site 1311000275 phosphorylation site [posttranslational modification] 1311000276 intermolecular recognition site; other site 1311000277 dimerization interface [polypeptide binding]; other site 1311000278 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 1311000279 DNA binding residues [nucleotide binding] 1311000280 dimerization interface [polypeptide binding]; other site 1311000281 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311000282 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 1311000283 active site 1311000284 motif I; other site 1311000285 motif II; other site 1311000286 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311000287 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; cd00317 1311000288 active site 1311000289 hypothetical protein; Provisional; Region: PRK07252 1311000290 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1311000291 RNA binding site [nucleotide binding]; other site 1311000292 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1311000293 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 1311000294 FeS/SAM binding site; other site 1311000295 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311000296 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1311000297 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311000298 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 1311000299 active site 1311000300 methionine cluster; other site 1311000301 phosphorylation site [posttranslational modification] 1311000302 metal binding site [ion binding]; metal-binding site 1311000303 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 1311000304 active site 1311000305 P-loop; other site 1311000306 phosphorylation site [posttranslational modification] 1311000307 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1311000308 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1311000309 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1311000310 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1311000311 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 1311000312 ATP binding site [chemical binding]; other site 1311000313 putative Mg++ binding site [ion binding]; other site 1311000314 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 1311000315 nucleotide binding region [chemical binding]; other site 1311000316 ATP-binding site [chemical binding]; other site 1311000317 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1311000318 30S subunit binding site; other site 1311000319 aspartate kinase; Reviewed; Region: PRK09034 1311000320 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 1311000321 putative catalytic residues [active] 1311000322 putative nucleotide binding site [chemical binding]; other site 1311000323 putative aspartate binding site [chemical binding]; other site 1311000324 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 1311000325 allosteric regulatory residue; other site 1311000326 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 1311000327 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1311000328 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 1311000329 motif II; other site 1311000330 enoyl-CoA hydratase; Provisional; Region: PRK07260 1311000331 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 1311000332 substrate binding site [chemical binding]; other site 1311000333 oxyanion hole (OAH) forming residues; other site 1311000334 trimer interface [polypeptide binding]; other site 1311000335 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; cl15762 1311000336 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1311000337 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 1311000338 putative Zn2+ binding site [ion binding]; other site 1311000339 putative DNA binding site [nucleotide binding]; other site 1311000340 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1311000341 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 1311000342 dimer interface [polypeptide binding]; other site 1311000343 active site 1311000344 CoA binding pocket [chemical binding]; other site 1311000345 acyl carrier protein; Provisional; Region: acpP; PRK00982 1311000346 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1311000347 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 1311000348 FMN binding site [chemical binding]; other site 1311000349 substrate binding site [chemical binding]; other site 1311000350 putative catalytic residue [active] 1311000351 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1311000352 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1311000353 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1311000354 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1311000355 NAD(P) binding site [chemical binding]; other site 1311000356 homotetramer interface [polypeptide binding]; other site 1311000357 homodimer interface [polypeptide binding]; other site 1311000358 active site 1311000359 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 1311000360 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1311000361 dimer interface [polypeptide binding]; other site 1311000362 active site 1311000363 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1311000364 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 1311000365 carboxyltransferase (CT) interaction site; other site 1311000366 biotinylation site [posttranslational modification]; other site 1311000367 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 1311000368 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1311000369 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311000370 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1311000371 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1311000372 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1311000373 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1311000374 acetyl-CoA carboxylase subunit alpha; Provisional; Region: PRK12319 1311000375 seryl-tRNA synthetase; Provisional; Region: PRK05431 1311000376 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1311000377 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1311000378 dimer interface [polypeptide binding]; other site 1311000379 active site 1311000380 motif 1; other site 1311000381 motif 2; other site 1311000382 motif 3; other site 1311000383 Domain of unknown function (DUF956); Region: DUF956; pfam06115 1311000384 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1311000385 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1311000386 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1311000387 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 1311000388 active pocket/dimerization site; other site 1311000389 active site 1311000390 phosphorylation site [posttranslational modification] 1311000391 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 1311000392 active site 1311000393 phosphorylation site [posttranslational modification] 1311000394 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 1311000395 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311000396 active site 1311000397 motif I; other site 1311000398 motif II; other site 1311000399 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311000400 Protein of unknown function (DUF1361); Region: DUF1361; pfam07099 1311000401 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1311000402 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1311000403 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1311000404 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311000405 Coenzyme A binding pocket [chemical binding]; other site 1311000406 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1311000407 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 1311000408 HIT family signature motif; other site 1311000409 catalytic residue [active] 1311000410 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1311000411 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1311000412 Walker A/P-loop; other site 1311000413 ATP binding site [chemical binding]; other site 1311000414 Q-loop/lid; other site 1311000415 ABC transporter signature motif; other site 1311000416 Walker B; other site 1311000417 D-loop; other site 1311000418 H-loop/switch region; other site 1311000419 Bacterial ABC transporter protein EcsB; Region: EcsB; pfam05975 1311000420 Phosphotransferase enzyme family; Region: APH; pfam01636 1311000421 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1311000422 active site 1311000423 ATP binding site [chemical binding]; other site 1311000424 substrate binding site [chemical binding]; other site 1311000425 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 1311000426 S-adenosylmethionine binding site [chemical binding]; other site 1311000427 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1311000428 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1311000429 putative oligomer interface [polypeptide binding]; other site 1311000430 putative RNA binding site [nucleotide binding]; other site 1311000431 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1311000432 NusA N-terminal domain; Region: NusA_N; pfam08529 1311000433 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 1311000434 RNA binding site [nucleotide binding]; other site 1311000435 homodimer interface [polypeptide binding]; other site 1311000436 NusA-like KH domain; Region: KH_5; pfam13184 1311000437 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 1311000438 G-X-X-G motif; other site 1311000439 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 1311000440 putative RNA binding cleft [nucleotide binding]; other site 1311000441 hypothetical protein; Provisional; Region: PRK07283 1311000442 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1311000443 translation initiation factor IF-2; Region: IF-2; TIGR00487 1311000444 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1311000445 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1311000446 G1 box; other site 1311000447 putative GEF interaction site [polypeptide binding]; other site 1311000448 GTP/Mg2+ binding site [chemical binding]; other site 1311000449 Switch I region; other site 1311000450 G2 box; other site 1311000451 G3 box; other site 1311000452 Switch II region; other site 1311000453 G4 box; other site 1311000454 G5 box; other site 1311000455 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 1311000456 Translation-initiation factor 2; Region: IF-2; pfam11987 1311000457 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 1311000458 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1311000459 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1311000460 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1311000461 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1311000462 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 1311000463 metal-binding site [ion binding] 1311000464 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1311000465 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 1311000466 motif II; other site 1311000467 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 1311000468 metal-binding site [ion binding] 1311000469 Predicted membrane protein [Function unknown]; Region: COG2860 1311000470 UPF0126 domain; Region: UPF0126; pfam03458 1311000471 UPF0126 domain; Region: UPF0126; pfam03458 1311000472 DNA polymerase I; Provisional; Region: PRK05755 1311000473 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1311000474 active site 1311000475 metal binding site 1 [ion binding]; metal-binding site 1311000476 putative 5' ssDNA interaction site; other site 1311000477 metal binding site 3; metal-binding site 1311000478 metal binding site 2 [ion binding]; metal-binding site 1311000479 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1311000480 putative DNA binding site [nucleotide binding]; other site 1311000481 putative metal binding site [ion binding]; other site 1311000482 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 1311000483 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1311000484 active site 1311000485 DNA binding site [nucleotide binding] 1311000486 catalytic site [active] 1311000487 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1311000488 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1311000489 metal binding site 2 [ion binding]; metal-binding site 1311000490 putative DNA binding helix; other site 1311000491 metal binding site 1 [ion binding]; metal-binding site 1311000492 dimer interface [polypeptide binding]; other site 1311000493 structural Zn2+ binding site [ion binding]; other site 1311000494 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1311000495 Fibronectin-binding repeat; Region: SSURE; pfam11966 1311000496 Fibronectin-binding repeat; Region: SSURE; pfam11966 1311000497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311000498 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 1311000499 active site 1311000500 phosphorylation site [posttranslational modification] 1311000501 intermolecular recognition site; other site 1311000502 dimerization interface [polypeptide binding]; other site 1311000503 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 1311000504 DNA binding site [nucleotide binding] 1311000505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311000506 HAMP domain; Region: HAMP; pfam00672 1311000507 dimerization interface [polypeptide binding]; other site 1311000508 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 1311000509 dimer interface [polypeptide binding]; other site 1311000510 phosphorylation site [posttranslational modification] 1311000511 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 1311000512 ATP binding site [chemical binding]; other site 1311000513 Mg2+ binding site [ion binding]; other site 1311000514 G-X-G motif; other site 1311000515 Protein of unknown function (DUF975); Region: DUF975; pfam06161 1311000516 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1311000517 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1311000518 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1311000519 CHY zinc finger; Region: zf-CHY; pfam05495 1311000520 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1311000521 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1311000522 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 1311000523 nucleoside/Zn binding site; other site 1311000524 dimer interface [polypeptide binding]; other site 1311000525 catalytic motif [active] 1311000526 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1311000527 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 1311000528 active site 1311000529 dimer interface [polypeptide binding]; other site 1311000530 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 1311000531 dimer interface [polypeptide binding]; other site 1311000532 active site 1311000533 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1311000534 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1311000535 Rhomboid family; Region: Rhomboid; pfam01694 1311000536 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1311000537 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 1311000538 ligand binding site [chemical binding]; other site 1311000539 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1311000540 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1311000541 active site 1311000542 tetramer interface; other site 1311000543 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1311000544 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1311000545 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1311000546 ribonuclease P; Reviewed; Region: rnpA; PRK00499 1311000547 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 1311000548 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1311000549 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1311000550 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 1311000551 G-X-X-G motif; other site 1311000552 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 1311000553 RxxxH motif; other site 1311000554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1311000555 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1311000556 Surface antigen [General function prediction only]; Region: COG3942 1311000557 CHAP domain; Region: CHAP; pfam05257 1311000558 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1311000559 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1311000560 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311000561 active site 1311000562 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1311000563 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 1311000564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311000565 homodimer interface [polypeptide binding]; other site 1311000566 catalytic residue [active] 1311000567 Recombination protein O N terminal; Region: RecO_N; pfam11967 1311000568 DNA repair protein RecO; Region: reco; TIGR00613 1311000569 Recombination protein O C terminal; Region: RecO_C; pfam02565 1311000570 putative transposase OrfB; Reviewed; Region: PHA02517 1311000571 HTH-like domain; Region: HTH_21; pfam13276 1311000572 Integrase core domain; Region: rve; pfam00665 1311000573 Integrase core domain; Region: rve_3; cl15866 1311000574 CAAX protease self-immunity; Region: Abi; pfam02517 1311000575 putative phosphate acyltransferase; Provisional; Region: PRK05331 1311000576 acyl carrier protein; Provisional; Region: PRK12449 1311000577 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1311000578 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1311000579 ATP binding site [chemical binding]; other site 1311000580 active site 1311000581 substrate binding site [chemical binding]; other site 1311000582 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1311000583 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 1311000584 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 1311000585 dimerization interface [polypeptide binding]; other site 1311000586 ATP binding site [chemical binding]; other site 1311000587 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 1311000588 dimerization interface [polypeptide binding]; other site 1311000589 ATP binding site [chemical binding]; other site 1311000590 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1311000591 putative active site [active] 1311000592 catalytic triad [active] 1311000593 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1311000594 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 1311000595 active site 1311000596 tetramer interface [polypeptide binding]; other site 1311000597 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311000598 active site 1311000599 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1311000600 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 1311000601 dimerization interface [polypeptide binding]; other site 1311000602 putative ATP binding site [chemical binding]; other site 1311000603 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1311000604 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1311000605 active site 1311000606 substrate binding site [chemical binding]; other site 1311000607 cosubstrate binding site; other site 1311000608 catalytic site [active] 1311000609 GNAT acetyltransferase; Region: GNAT_acetyltran; pfam12746 1311000610 Predicted acetyltransferase [General function prediction only]; Region: COG3393 1311000611 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1311000612 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 1311000613 purine monophosphate binding site [chemical binding]; other site 1311000614 dimer interface [polypeptide binding]; other site 1311000615 putative catalytic residues [active] 1311000616 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1311000617 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1311000618 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1311000619 Peptidase family M23; Region: Peptidase_M23; pfam01551 1311000620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311000621 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 1311000622 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1311000623 putative active site cavity [active] 1311000624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1311000625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1311000626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1311000627 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 1311000628 dimer interface [polypeptide binding]; other site 1311000629 conserved gate region; other site 1311000630 putative PBP binding loops; other site 1311000631 ABC-ATPase subunit interface; other site 1311000632 Domain of unknown function (DUF386); Region: DUF386; cl01047 1311000633 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1311000634 Class I aldolases; Region: Aldolase_Class_I; cl17187 1311000635 catalytic residue [active] 1311000636 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1311000637 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311000638 nucleotide binding site [chemical binding]; other site 1311000639 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1311000640 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1311000641 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 1311000642 putative active site [active] 1311000643 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1311000644 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1311000645 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1311000646 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1311000647 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1311000648 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1311000649 ATP-grasp domain; Region: ATP-grasp; pfam02222 1311000650 adenylosuccinate lyase; Provisional; Region: PRK07492 1311000651 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1311000652 tetramer interface [polypeptide binding]; other site 1311000653 active site 1311000654 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1311000655 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 1311000656 non-specific DNA binding site [nucleotide binding]; other site 1311000657 salt bridge; other site 1311000658 sequence-specific DNA binding site [nucleotide binding]; other site 1311000659 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1311000660 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 1311000661 Walker A motif; other site 1311000662 ATP binding site [chemical binding]; other site 1311000663 Walker B motif; other site 1311000664 arginine finger; other site 1311000665 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1311000666 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1311000667 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1311000668 active site 1311000669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1311000670 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1311000671 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1311000672 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 1311000673 active site 1311000674 catalytic triad [active] 1311000675 oxyanion hole [active] 1311000676 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1311000677 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1311000678 putative catalytic cysteine [active] 1311000679 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1311000680 putative active site [active] 1311000681 metal binding site [ion binding]; metal-binding site 1311000682 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1311000683 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1311000684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311000685 catalytic residue [active] 1311000686 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1311000687 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1311000688 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1311000689 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1311000690 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1311000691 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1311000692 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1311000693 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1311000694 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1311000695 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1311000696 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 1311000697 putative translocon binding site; other site 1311000698 protein-rRNA interface [nucleotide binding]; other site 1311000699 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1311000700 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 1311000701 G-X-X-G motif; other site 1311000702 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1311000703 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 1311000704 23S rRNA interface [nucleotide binding]; other site 1311000705 5S rRNA interface [nucleotide binding]; other site 1311000706 putative antibiotic binding site [chemical binding]; other site 1311000707 L25 interface [polypeptide binding]; other site 1311000708 L27 interface [polypeptide binding]; other site 1311000709 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 1311000710 23S rRNA interface [nucleotide binding]; other site 1311000711 putative translocon interaction site; other site 1311000712 signal recognition particle (SRP54) interaction site; other site 1311000713 L23 interface [polypeptide binding]; other site 1311000714 trigger factor interaction site; other site 1311000715 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1311000716 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1311000717 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1311000718 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1311000719 RNA binding site [nucleotide binding]; other site 1311000720 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1311000721 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1311000722 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1311000723 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1311000724 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1311000725 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1311000726 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1311000727 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1311000728 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 1311000729 5S rRNA interface [nucleotide binding]; other site 1311000730 L27 interface [polypeptide binding]; other site 1311000731 23S rRNA interface [nucleotide binding]; other site 1311000732 L5 interface [polypeptide binding]; other site 1311000733 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1311000734 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1311000735 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1311000736 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 1311000737 23S rRNA binding site [nucleotide binding]; other site 1311000738 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1311000739 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1311000740 SecY translocase; Region: SecY; pfam00344 1311000741 adenylate kinase; Reviewed; Region: adk; PRK00279 1311000742 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 1311000743 AMP-binding site [chemical binding]; other site 1311000744 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1311000745 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 1311000746 rRNA binding site [nucleotide binding]; other site 1311000747 predicted 30S ribosome binding site; other site 1311000748 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1311000749 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1311000750 30S ribosomal protein S11; Validated; Region: PRK05309 1311000751 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1311000752 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1311000753 alphaNTD homodimer interface [polypeptide binding]; other site 1311000754 alphaNTD - beta interaction site [polypeptide binding]; other site 1311000755 alphaNTD - beta' interaction site [polypeptide binding]; other site 1311000756 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1311000757 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1311000758 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1311000759 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1311000760 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 1311000761 catalytic core [active] 1311000762 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 1311000763 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1311000764 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1311000765 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1311000766 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1311000767 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1311000768 GrpE; Region: GrpE; pfam01025 1311000769 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 1311000770 dimer interface [polypeptide binding]; other site 1311000771 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1311000772 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1311000773 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1311000774 nucleotide binding site [chemical binding]; other site 1311000775 NEF interaction site [polypeptide binding]; other site 1311000776 SBD interface [polypeptide binding]; other site 1311000777 chaperone protein DnaJ; Provisional; Region: PRK14276 1311000778 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 1311000779 HSP70 interaction site [polypeptide binding]; other site 1311000780 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1311000781 substrate binding site [polypeptide binding]; other site 1311000782 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1311000783 Zn binding sites [ion binding]; other site 1311000784 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1311000785 dimer interface [polypeptide binding]; other site 1311000786 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1311000787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311000788 DNA-binding site [nucleotide binding]; DNA binding site 1311000789 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 1311000790 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311000791 homodimer interface [polypeptide binding]; other site 1311000792 catalytic residue [active] 1311000793 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1311000794 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1311000795 dimerization interface 3.5A [polypeptide binding]; other site 1311000796 active site 1311000797 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 1311000798 dimer interface [polypeptide binding]; other site 1311000799 substrate binding site [chemical binding]; other site 1311000800 ATP binding site [chemical binding]; other site 1311000801 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 1311000802 hypothetical protein; Provisional; Region: PRK13690 1311000803 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1311000804 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1311000805 trigger factor; Provisional; Region: tig; PRK01490 1311000806 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1311000807 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1311000808 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; pfam05066 1311000809 CTP synthetase; Validated; Region: pyrG; PRK05380 1311000810 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 1311000811 Catalytic site [active] 1311000812 active site 1311000813 UTP binding site [chemical binding]; other site 1311000814 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1311000815 active site 1311000816 putative oxyanion hole; other site 1311000817 catalytic triad [active] 1311000818 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1311000819 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1311000820 trimer interface [polypeptide binding]; other site 1311000821 active site 1311000822 DNA repair protein RadA; Provisional; Region: PRK11823 1311000823 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 1311000824 Walker A motif/ATP binding site; other site 1311000825 ATP binding site [chemical binding]; other site 1311000826 Walker B motif; other site 1311000827 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1311000828 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 1311000829 active site clefts [active] 1311000830 zinc binding site [ion binding]; other site 1311000831 dimer interface [polypeptide binding]; other site 1311000832 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1311000833 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311000834 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311000835 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1311000836 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1311000837 active site 1311000838 HIGH motif; other site 1311000839 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1311000840 active site 1311000841 KMSKS motif; other site 1311000842 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1311000843 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1311000844 ligand binding site [chemical binding]; other site 1311000845 dimerization interface [polypeptide binding]; other site 1311000846 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1311000847 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311000848 TM-ABC transporter signature motif; other site 1311000849 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1311000850 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1311000851 Walker A/P-loop; other site 1311000852 ATP binding site [chemical binding]; other site 1311000853 Q-loop/lid; other site 1311000854 ABC transporter signature motif; other site 1311000855 Walker B; other site 1311000856 D-loop; other site 1311000857 H-loop/switch region; other site 1311000858 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1311000859 D-ribose pyranase; Provisional; Region: PRK11797 1311000860 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1311000861 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1311000862 substrate binding site [chemical binding]; other site 1311000863 dimer interface [polypeptide binding]; other site 1311000864 ATP binding site [chemical binding]; other site 1311000865 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311000866 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311000867 DNA binding site [nucleotide binding] 1311000868 domain linker motif; other site 1311000869 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1311000870 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311000871 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1311000872 FtsX-like permease family; Region: FtsX; pfam02687 1311000873 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311000874 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311000875 Walker A/P-loop; other site 1311000876 ATP binding site [chemical binding]; other site 1311000877 Q-loop/lid; other site 1311000878 ABC transporter signature motif; other site 1311000879 Walker B; other site 1311000880 D-loop; other site 1311000881 H-loop/switch region; other site 1311000882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311000883 HAMP domain; Region: HAMP; pfam00672 1311000884 dimerization interface [polypeptide binding]; other site 1311000885 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 1311000886 dimer interface [polypeptide binding]; other site 1311000887 phosphorylation site [posttranslational modification] 1311000888 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 1311000889 ATP binding site [chemical binding]; other site 1311000890 Mg2+ binding site [ion binding]; other site 1311000891 G-X-G motif; other site 1311000892 argininosuccinate synthase; Provisional; Region: PRK13820 1311000893 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1311000894 ANP binding site [chemical binding]; other site 1311000895 Substrate Binding Site II [chemical binding]; other site 1311000896 Substrate Binding Site I [chemical binding]; other site 1311000897 argininosuccinate lyase; Provisional; Region: PRK00855 1311000898 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1311000899 active sites [active] 1311000900 tetramer interface [polypeptide binding]; other site 1311000901 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1311000902 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 1311000903 intersubunit interface [polypeptide binding]; other site 1311000904 active site 1311000905 zinc binding site [ion binding]; other site 1311000906 Na+ binding site [ion binding]; other site 1311000907 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1311000908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1311000909 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1311000910 DAK2 domain; Region: Dak2; pfam02734 1311000911 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311000912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311000913 Walker A/P-loop; other site 1311000914 ATP binding site [chemical binding]; other site 1311000915 Q-loop/lid; other site 1311000916 ABC transporter signature motif; other site 1311000917 Walker B; other site 1311000918 D-loop; other site 1311000919 H-loop/switch region; other site 1311000920 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311000921 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 1311000922 substrate binding pocket [chemical binding]; other site 1311000923 membrane-bound complex binding site; other site 1311000924 hinge residues; other site 1311000925 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311000926 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 1311000927 dimer interface [polypeptide binding]; other site 1311000928 conserved gate region; other site 1311000929 putative PBP binding loops; other site 1311000930 ABC-ATPase subunit interface; other site 1311000931 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1311000932 adaptor protein; Provisional; Region: PRK02315 1311000933 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1311000934 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 1311000935 Mg++ binding site [ion binding]; other site 1311000936 putative catalytic motif [active] 1311000937 substrate binding site [chemical binding]; other site 1311000938 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1311000939 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1311000940 Walker A/P-loop; other site 1311000941 ATP binding site [chemical binding]; other site 1311000942 Q-loop/lid; other site 1311000943 ABC transporter signature motif; other site 1311000944 Walker B; other site 1311000945 D-loop; other site 1311000946 H-loop/switch region; other site 1311000947 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1311000948 FeS assembly protein SufD; Region: sufD; TIGR01981 1311000949 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1311000950 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 1311000951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311000952 catalytic residue [active] 1311000953 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1311000954 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1311000955 trimerization site [polypeptide binding]; other site 1311000956 active site 1311000957 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1311000958 FeS assembly protein SufB; Region: sufB; TIGR01980 1311000959 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1311000960 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1311000961 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1311000962 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1311000963 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1311000964 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1311000965 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1311000966 peptide binding site [polypeptide binding]; other site 1311000967 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1311000968 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 1311000969 dimer interface [polypeptide binding]; other site 1311000970 conserved gate region; other site 1311000971 putative PBP binding loops; other site 1311000972 ABC-ATPase subunit interface; other site 1311000973 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1311000974 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 1311000975 dimer interface [polypeptide binding]; other site 1311000976 conserved gate region; other site 1311000977 putative PBP binding loops; other site 1311000978 ABC-ATPase subunit interface; other site 1311000979 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1311000980 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311000981 Walker A/P-loop; other site 1311000982 ATP binding site [chemical binding]; other site 1311000983 Q-loop/lid; other site 1311000984 ABC transporter signature motif; other site 1311000985 Walker B; other site 1311000986 D-loop; other site 1311000987 H-loop/switch region; other site 1311000988 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311000989 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1311000990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311000991 Walker A/P-loop; other site 1311000992 ATP binding site [chemical binding]; other site 1311000993 Q-loop/lid; other site 1311000994 ABC transporter signature motif; other site 1311000995 Walker B; other site 1311000996 D-loop; other site 1311000997 H-loop/switch region; other site 1311000998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1311000999 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1311001000 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 1311001001 putative Zn2+ binding site [ion binding]; other site 1311001002 putative DNA binding site [nucleotide binding]; other site 1311001003 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1311001004 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1311001005 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1311001006 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 1311001007 ABC-ATPase subunit interface; other site 1311001008 dimer interface [polypeptide binding]; other site 1311001009 putative PBP binding regions; other site 1311001010 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1311001011 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1311001012 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1311001013 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1311001014 active site 1311001015 HIGH motif; other site 1311001016 dimer interface [polypeptide binding]; other site 1311001017 KMSKS motif; other site 1311001018 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 1311001019 RNA binding surface [nucleotide binding]; other site 1311001020 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1311001021 Transglycosylase; Region: Transgly; pfam00912 1311001022 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1311001023 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1311001024 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1311001025 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1311001026 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 1311001027 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 1311001028 RPB1 interaction site [polypeptide binding]; other site 1311001029 RPB10 interaction site [polypeptide binding]; other site 1311001030 RPB11 interaction site [polypeptide binding]; other site 1311001031 RPB3 interaction site [polypeptide binding]; other site 1311001032 RPB12 interaction site [polypeptide binding]; other site 1311001033 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1311001034 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1311001035 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1311001036 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1311001037 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1311001038 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1311001039 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1311001040 G-loop; other site 1311001041 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1311001042 DNA binding site [nucleotide binding] 1311001043 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1311001044 Protein of unknown function (DUF1033); Region: DUF1033; pfam06279 1311001045 Type II/IV secretion system protein; Region: T2SE; pfam00437 1311001046 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1311001047 Walker A motif; other site 1311001048 ATP binding site [chemical binding]; other site 1311001049 Walker B motif; other site 1311001050 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1311001051 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1311001052 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 1311001053 S-adenosylmethionine binding site [chemical binding]; other site 1311001054 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1311001055 propionate/acetate kinase; Provisional; Region: PRK12379 1311001056 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 1311001057 non-specific DNA binding site [nucleotide binding]; other site 1311001058 salt bridge; other site 1311001059 sequence-specific DNA binding site [nucleotide binding]; other site 1311001060 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1311001061 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1311001062 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1311001063 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1311001064 oligomer interface [polypeptide binding]; other site 1311001065 active site 1311001066 metal binding site [ion binding]; metal-binding site 1311001067 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 1311001068 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1311001069 catalytic residues [active] 1311001070 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 1311001071 putative tRNA-binding site [nucleotide binding]; other site 1311001072 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1311001073 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 1311001074 S-adenosylmethionine binding site [chemical binding]; other site 1311001075 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1311001076 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 1311001077 dimer interface [polypeptide binding]; other site 1311001078 ssDNA binding site [nucleotide binding]; other site 1311001079 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311001080 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1311001081 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 1311001082 motif II; other site 1311001083 two-component response regulator; Provisional; Region: PRK14084 1311001084 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 1311001085 active site 1311001086 phosphorylation site [posttranslational modification] 1311001087 intermolecular recognition site; other site 1311001088 dimerization interface [polypeptide binding]; other site 1311001089 LytTr DNA-binding domain; Region: LytTR; pfam04397 1311001090 LrgA family; Region: LrgA; cl00608 1311001091 LrgB-like family; Region: LrgB; cl00596 1311001092 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311001093 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 1311001094 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1311001095 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 1311001096 dimer interface [polypeptide binding]; other site 1311001097 conserved gate region; other site 1311001098 putative PBP binding loops; other site 1311001099 ABC-ATPase subunit interface; other site 1311001100 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1311001101 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 1311001102 dimer interface [polypeptide binding]; other site 1311001103 conserved gate region; other site 1311001104 putative PBP binding loops; other site 1311001105 ABC-ATPase subunit interface; other site 1311001106 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311001107 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1311001108 Walker A/P-loop; other site 1311001109 ATP binding site [chemical binding]; other site 1311001110 Q-loop/lid; other site 1311001111 ABC transporter signature motif; other site 1311001112 Walker B; other site 1311001113 D-loop; other site 1311001114 H-loop/switch region; other site 1311001115 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1311001116 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311001117 Walker A/P-loop; other site 1311001118 ATP binding site [chemical binding]; other site 1311001119 Q-loop/lid; other site 1311001120 ABC transporter signature motif; other site 1311001121 Walker B; other site 1311001122 D-loop; other site 1311001123 H-loop/switch region; other site 1311001124 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1311001125 PRD domain; Region: PRD; pfam00874 1311001126 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 1311001127 active site 1311001128 P-loop; other site 1311001129 phosphorylation site [posttranslational modification] 1311001130 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 1311001131 active site 1311001132 phosphorylation site [posttranslational modification] 1311001133 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 1311001134 active site 1311001135 P-loop; other site 1311001136 phosphorylation site [posttranslational modification] 1311001137 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1311001138 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 1311001139 TPP-binding site [chemical binding]; other site 1311001140 dimer interface [polypeptide binding]; other site 1311001141 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1311001142 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 1311001143 PYR/PP interface [polypeptide binding]; other site 1311001144 dimer interface [polypeptide binding]; other site 1311001145 TPP binding site [chemical binding]; other site 1311001146 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1311001147 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 1311001148 16S/18S rRNA binding site [nucleotide binding]; other site 1311001149 S13e-L30e interaction site [polypeptide binding]; other site 1311001150 25S rRNA binding site [nucleotide binding]; other site 1311001151 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1311001152 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1311001153 RNase E interface [polypeptide binding]; other site 1311001154 trimer interface [polypeptide binding]; other site 1311001155 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1311001156 RNase E interface [polypeptide binding]; other site 1311001157 trimer interface [polypeptide binding]; other site 1311001158 active site 1311001159 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 1311001160 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 1311001161 RNA binding site [nucleotide binding]; other site 1311001162 domain interface; other site 1311001163 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1311001164 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 1311001165 trimer interface [polypeptide binding]; other site 1311001166 active site 1311001167 substrate binding site [chemical binding]; other site 1311001168 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1311001169 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1311001170 active site 1311001171 HIGH motif; other site 1311001172 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1311001173 KMSKS motif; other site 1311001174 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1311001175 tRNA binding surface [nucleotide binding]; other site 1311001176 anticodon binding site; other site 1311001177 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 1311001178 active site 1311001179 metal binding site [ion binding]; metal-binding site 1311001180 dimerization interface [polypeptide binding]; other site 1311001181 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1311001182 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1311001183 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1311001184 YacP-like NYN domain; Region: NYN_YacP; cl01491 1311001185 EDD domain protein, DegV family; Region: DegV; TIGR00762 1311001186 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1311001187 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 1311001188 non-specific DNA binding site [nucleotide binding]; other site 1311001189 salt bridge; other site 1311001190 sequence-specific DNA binding site [nucleotide binding]; other site 1311001191 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 1311001192 23S rRNA interface [nucleotide binding]; other site 1311001193 L3 interface [polypeptide binding]; other site 1311001194 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1311001195 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1311001196 De-etiolated protein 1 Det1; Region: Det1; pfam09737 1311001197 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 1311001198 non-specific DNA binding site [nucleotide binding]; other site 1311001199 salt bridge; other site 1311001200 sequence-specific DNA binding site [nucleotide binding]; other site 1311001201 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1311001202 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 1311001203 dimer interface [polypeptide binding]; other site 1311001204 conserved gate region; other site 1311001205 ABC-ATPase subunit interface; other site 1311001206 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1311001207 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1311001208 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 1311001209 dimer interface [polypeptide binding]; other site 1311001210 conserved gate region; other site 1311001211 putative PBP binding loops; other site 1311001212 ABC-ATPase subunit interface; other site 1311001213 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1311001214 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1311001215 Walker A/P-loop; other site 1311001216 ATP binding site [chemical binding]; other site 1311001217 Q-loop/lid; other site 1311001218 ABC transporter signature motif; other site 1311001219 Walker B; other site 1311001220 D-loop; other site 1311001221 H-loop/switch region; other site 1311001222 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1311001223 hypothetical protein; Provisional; Region: PRK13662 1311001224 recombination regulator RecX; Provisional; Region: recX; PRK14135 1311001225 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1311001226 TRAM domain; Region: TRAM; cl01282 1311001227 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 1311001228 S-adenosylmethionine binding site [chemical binding]; other site 1311001229 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 1311001230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311001231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1311001232 Coenzyme A binding pocket [chemical binding]; other site 1311001233 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1311001234 putative active site [active] 1311001235 catalytic triad [active] 1311001236 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 1311001237 PA/protease domain interface [polypeptide binding]; other site 1311001238 putative integrin binding motif; other site 1311001239 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 1311001240 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 1311001241 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 1311001242 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311001243 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1311001244 Probable Catalytic site; other site 1311001245 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1311001246 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1311001247 dimer interface [polypeptide binding]; other site 1311001248 putative radical transfer pathway; other site 1311001249 diiron center [ion binding]; other site 1311001250 tyrosyl radical; other site 1311001251 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1311001252 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 1311001253 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1311001254 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1311001255 active site 1311001256 dimer interface [polypeptide binding]; other site 1311001257 catalytic residues [active] 1311001258 effector binding site; other site 1311001259 R2 peptide binding site; other site 1311001260 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1311001261 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 1311001262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 1311001263 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; pfam10078 1311001264 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1311001265 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1311001266 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1311001267 DNA binding residues [nucleotide binding] 1311001268 putative dimer interface [polypeptide binding]; other site 1311001269 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1311001270 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1311001271 catalytic Zn binding site [ion binding]; other site 1311001272 NAD(P) binding site [chemical binding]; other site 1311001273 structural Zn binding site [ion binding]; other site 1311001274 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 1311001275 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1311001276 active site 1311001277 catalytic tetrad [active] 1311001278 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1311001279 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1311001280 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311001281 Cupin domain; Region: Cupin_2; cl17218 1311001282 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1311001283 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1311001284 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 1311001285 S-adenosylmethionine binding site [chemical binding]; other site 1311001286 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1311001287 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 1311001288 active site 1311001289 P-loop; other site 1311001290 phosphorylation site [posttranslational modification] 1311001291 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 1311001292 active site 1311001293 phosphorylation site [posttranslational modification] 1311001294 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 1311001295 active site 1311001296 phosphorylation site [posttranslational modification] 1311001297 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1311001298 active site 1311001299 P-loop; other site 1311001300 phosphorylation site [posttranslational modification] 1311001301 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 1311001302 intersubunit interface [polypeptide binding]; other site 1311001303 active site 1311001304 Zn2+ binding site [ion binding]; other site 1311001305 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 1311001306 active site 1311001307 phosphorylation site [posttranslational modification] 1311001308 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1311001309 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1311001310 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1311001311 active site 1311001312 P-loop; other site 1311001313 phosphorylation site [posttranslational modification] 1311001314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1311001315 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1311001316 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1311001317 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 1311001318 putative PBP binding loops; other site 1311001319 dimer interface [polypeptide binding]; other site 1311001320 ABC-ATPase subunit interface; other site 1311001321 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1311001322 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 1311001323 dimer interface [polypeptide binding]; other site 1311001324 conserved gate region; other site 1311001325 putative PBP binding loops; other site 1311001326 ABC-ATPase subunit interface; other site 1311001327 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1311001328 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1311001329 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 1311001330 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1311001331 active site 1311001332 catalytic residues [active] 1311001333 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1311001334 hypothetical protein; Provisional; Region: PRK07758 1311001335 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1311001336 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1311001337 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1311001338 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311001339 active site 1311001340 HIGH motif; other site 1311001341 nucleotide binding site [chemical binding]; other site 1311001342 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1311001343 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1311001344 active site 1311001345 KMSKS motif; other site 1311001346 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1311001347 tRNA binding surface [nucleotide binding]; other site 1311001348 anticodon binding site; other site 1311001349 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1311001350 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1311001351 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 1311001352 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1311001353 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 1311001354 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1311001355 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1311001356 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1311001357 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311001358 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1311001359 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 1311001360 dimer interface [polypeptide binding]; other site 1311001361 active site 1311001362 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 1311001363 catalytic residues [active] 1311001364 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1311001365 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 1311001366 S-adenosylmethionine binding site [chemical binding]; other site 1311001367 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1311001368 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1311001369 active site 1311001370 (T/H)XGH motif; other site 1311001371 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 1311001372 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1311001373 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 1311001374 FeS/SAM binding site; other site 1311001375 VanZ like family; Region: VanZ; pfam04892 1311001376 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311001377 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1311001378 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311001379 Walker A/P-loop; other site 1311001380 ATP binding site [chemical binding]; other site 1311001381 Q-loop/lid; other site 1311001382 ABC transporter signature motif; other site 1311001383 Walker B; other site 1311001384 D-loop; other site 1311001385 H-loop/switch region; other site 1311001386 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1311001387 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311001388 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1311001389 Walker A/P-loop; other site 1311001390 ATP binding site [chemical binding]; other site 1311001391 Q-loop/lid; other site 1311001392 ABC transporter signature motif; other site 1311001393 Walker B; other site 1311001394 D-loop; other site 1311001395 H-loop/switch region; other site 1311001396 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1311001397 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1311001398 glutamine binding [chemical binding]; other site 1311001399 catalytic triad [active] 1311001400 BioY family; Region: BioY; pfam02632 1311001401 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 1311001402 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1311001403 dimer interface [polypeptide binding]; other site 1311001404 active site 1311001405 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1311001406 AMP binding site [chemical binding]; other site 1311001407 active site 1311001408 acyl-activating enzyme (AAE) consensus motif; other site 1311001409 CoA binding site [chemical binding]; other site 1311001410 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1311001411 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1311001412 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1311001413 minor groove reading motif; other site 1311001414 helix-hairpin-helix signature motif; other site 1311001415 substrate binding pocket [chemical binding]; other site 1311001416 active site 1311001417 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1311001418 Bacterial protein of unknown function (DUF910); Region: DUF910; pfam06014 1311001419 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 1311001420 active site residue [active] 1311001421 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1311001422 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1311001423 G1 box; other site 1311001424 putative GEF interaction site [polypeptide binding]; other site 1311001425 GTP/Mg2+ binding site [chemical binding]; other site 1311001426 Switch I region; other site 1311001427 G2 box; other site 1311001428 G3 box; other site 1311001429 Switch II region; other site 1311001430 G4 box; other site 1311001431 G5 box; other site 1311001432 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 1311001433 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 1311001434 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1311001435 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1311001436 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1311001437 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311001438 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311001439 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1311001440 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 1311001441 homodimer interface [polypeptide binding]; other site 1311001442 active site 1311001443 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1311001444 Cell division protein FtsQ; Region: FtsQ; pfam03799 1311001445 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1311001446 Cell division protein FtsA; Region: FtsA; smart00842 1311001447 Cell division protein FtsA; Region: FtsA; pfam14450 1311001448 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1311001449 cell division protein FtsZ; Validated; Region: PRK09330 1311001450 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 1311001451 nucleotide binding site [chemical binding]; other site 1311001452 SulA interaction site; other site 1311001453 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1311001454 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1311001455 catalytic residue [active] 1311001456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1311001457 YGGT family; Region: YGGT; pfam02325 1311001458 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1311001459 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 1311001460 RNA binding surface [nucleotide binding]; other site 1311001461 DivIVA protein; Region: DivIVA; pfam05103 1311001462 DivIVA domain; Region: DivI1A_domain; TIGR03544 1311001463 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1311001464 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311001465 active site 1311001466 HIGH motif; other site 1311001467 nucleotide binding site [chemical binding]; other site 1311001468 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1311001469 active site 1311001470 KMSKS motif; other site 1311001471 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1311001472 tRNA binding surface [nucleotide binding]; other site 1311001473 anticodon binding site; other site 1311001474 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1311001475 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 1311001476 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1311001477 Walker A motif; other site 1311001478 ATP binding site [chemical binding]; other site 1311001479 Walker B motif; other site 1311001480 arginine finger; other site 1311001481 UvrB/uvrC motif; Region: UVR; pfam02151 1311001482 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 1311001483 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1311001484 Walker A motif; other site 1311001485 ATP binding site [chemical binding]; other site 1311001486 Walker B motif; other site 1311001487 arginine finger; other site 1311001488 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1311001489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4703 1311001490 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311001491 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 1311001492 dimer interface [polypeptide binding]; other site 1311001493 conserved gate region; other site 1311001494 putative PBP binding loops; other site 1311001495 ABC-ATPase subunit interface; other site 1311001496 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311001497 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311001498 Walker A/P-loop; other site 1311001499 ATP binding site [chemical binding]; other site 1311001500 Q-loop/lid; other site 1311001501 ABC transporter signature motif; other site 1311001502 Walker B; other site 1311001503 D-loop; other site 1311001504 H-loop/switch region; other site 1311001505 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1311001506 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 1311001507 active site 1311001508 substrate binding site [chemical binding]; other site 1311001509 metal binding site [ion binding]; metal-binding site 1311001510 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1311001511 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1311001512 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1311001513 homodimer interface [polypeptide binding]; other site 1311001514 NADP binding site [chemical binding]; other site 1311001515 substrate binding site [chemical binding]; other site 1311001516 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1311001517 putative substrate binding site [chemical binding]; other site 1311001518 putative ATP binding site [chemical binding]; other site 1311001519 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1311001520 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 1311001521 generic binding surface II; other site 1311001522 generic binding surface I; other site 1311001523 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1311001524 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1311001525 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1311001526 substrate binding pocket [chemical binding]; other site 1311001527 chain length determination region; other site 1311001528 substrate-Mg2+ binding site; other site 1311001529 catalytic residues [active] 1311001530 aspartate-rich region 1; other site 1311001531 active site lid residues [active] 1311001532 aspartate-rich region 2; other site 1311001533 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1311001534 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 1311001535 RNA binding surface [nucleotide binding]; other site 1311001536 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1311001537 Arginine repressor [Transcription]; Region: ArgR; COG1438 1311001538 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1311001539 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1311001540 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1311001541 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1311001542 Walker A/P-loop; other site 1311001543 ATP binding site [chemical binding]; other site 1311001544 Q-loop/lid; other site 1311001545 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1311001546 ABC transporter signature motif; other site 1311001547 Walker B; other site 1311001548 D-loop; other site 1311001549 H-loop/switch region; other site 1311001550 EDD domain protein, DegV family; Region: DegV; TIGR00762 1311001551 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1311001552 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 1311001553 active site 1311001554 catalytic triad [active] 1311001555 oxyanion hole [active] 1311001556 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; pfam09911 1311001557 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 1311001558 IHF dimer interface [polypeptide binding]; other site 1311001559 IHF - DNA interface [nucleotide binding]; other site 1311001560 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1311001561 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 1311001562 active site 1311001563 FMN binding site [chemical binding]; other site 1311001564 substrate binding site [chemical binding]; other site 1311001565 catalytic residues [active] 1311001566 homodimer interface [polypeptide binding]; other site 1311001567 FemAB family; Region: FemAB; pfam02388 1311001568 FemAB family; Region: FemAB; pfam02388 1311001569 sugar phosphate phosphatase; Provisional; Region: PRK10513 1311001570 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 1311001571 active site 1311001572 motif I; other site 1311001573 motif II; other site 1311001574 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1311001575 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311001576 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1311001577 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311001578 Zn2+ binding site [ion binding]; other site 1311001579 Mg2+ binding site [ion binding]; other site 1311001580 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 1311001581 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1311001582 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1311001583 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1311001584 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1311001585 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1311001586 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1311001587 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1311001588 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 1311001589 active site 1311001590 metal binding site [ion binding]; metal-binding site 1311001591 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 1311001592 epoxyqueuosine reductase; Region: TIGR00276 1311001593 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1311001594 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1311001595 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1311001596 RF-1 domain; Region: RF-1; pfam00472 1311001597 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1311001598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311001599 Walker A/P-loop; other site 1311001600 ATP binding site [chemical binding]; other site 1311001601 Q-loop/lid; other site 1311001602 ABC transporter signature motif; other site 1311001603 Walker B; other site 1311001604 D-loop; other site 1311001605 H-loop/switch region; other site 1311001606 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1311001607 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1311001608 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1311001609 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1311001610 acetoin reductase; Validated; Region: PRK08643 1311001611 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1311001612 NAD binding site [chemical binding]; other site 1311001613 homotetramer interface [polypeptide binding]; other site 1311001614 homodimer interface [polypeptide binding]; other site 1311001615 active site 1311001616 substrate binding site [chemical binding]; other site 1311001617 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1311001618 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1311001619 active site 1311001620 catalytic site [active] 1311001621 substrate binding site [chemical binding]; other site 1311001622 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1311001623 ATP binding site [chemical binding]; other site 1311001624 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1311001625 aspartate aminotransferase; Provisional; Region: PRK05764 1311001626 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 1311001627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311001628 homodimer interface [polypeptide binding]; other site 1311001629 catalytic residue [active] 1311001630 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1311001631 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 1311001632 putative dimer interface [polypeptide binding]; other site 1311001633 putative anticodon binding site; other site 1311001634 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 1311001635 homodimer interface [polypeptide binding]; other site 1311001636 motif 1; other site 1311001637 motif 2; other site 1311001638 active site 1311001639 motif 3; other site 1311001640 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1311001641 active site 1311001642 OsmC-like protein; Region: OsmC; cl00767 1311001643 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1311001644 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1311001645 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1311001646 dimer interface [polypeptide binding]; other site 1311001647 phosphate binding site [ion binding]; other site 1311001648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1311001649 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1311001650 Peptidase family C69; Region: Peptidase_C69; pfam03577 1311001651 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1311001652 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 1311001653 metal binding site [ion binding]; metal-binding site 1311001654 YodA lipocalin-like domain; Region: YodA; pfam09223 1311001655 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1311001656 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1311001657 DHH family; Region: DHH; pfam01368 1311001658 DHHA1 domain; Region: DHHA1; pfam02272 1311001659 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1311001660 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1311001661 active site 1311001662 purine riboside binding site [chemical binding]; other site 1311001663 flavodoxin; Validated; Region: PRK07308 1311001664 hypothetical protein; Provisional; Region: PRK07248 1311001665 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1311001666 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1311001667 putative Cl- selectivity filter; other site 1311001668 putative pore gating glutamate residue; other site 1311001669 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1311001670 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1311001671 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 1311001672 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 1311001673 motif II; other site 1311001674 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1311001675 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 1311001676 Mg2+ binding site [ion binding]; other site 1311001677 G-X-G motif; other site 1311001678 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 1311001679 anchoring element; other site 1311001680 dimer interface [polypeptide binding]; other site 1311001681 ATP binding site [chemical binding]; other site 1311001682 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 1311001683 active site 1311001684 putative metal-binding site [ion binding]; other site 1311001685 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1311001686 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1311001687 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311001688 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1311001689 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 1311001690 motif II; other site 1311001691 NUDIX domain; Region: NUDIX; pfam00293 1311001692 nudix motif; other site 1311001693 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 1311001694 enolase; Provisional; Region: eno; PRK00077 1311001695 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 1311001696 dimer interface [polypeptide binding]; other site 1311001697 metal binding site [ion binding]; metal-binding site 1311001698 substrate binding pocket [chemical binding]; other site 1311001699 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1311001700 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 1311001701 hinge; other site 1311001702 active site 1311001703 shikimate kinase; Reviewed; Region: aroK; PRK00131 1311001704 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 1311001705 ADP binding site [chemical binding]; other site 1311001706 magnesium binding site [ion binding]; other site 1311001707 putative shikimate binding site; other site 1311001708 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1311001709 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1311001710 TRAM domain; Region: TRAM; cl01282 1311001711 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 1311001712 S-adenosylmethionine binding site [chemical binding]; other site 1311001713 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 1311001714 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 1311001715 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311001716 catalytic residue [active] 1311001717 Beta-lactamase; Region: Beta-lactamase; pfam00144 1311001718 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1311001719 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 1311001720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311001721 Walker A/P-loop; other site 1311001722 ATP binding site [chemical binding]; other site 1311001723 Q-loop/lid; other site 1311001724 ABC transporter signature motif; other site 1311001725 Walker B; other site 1311001726 D-loop; other site 1311001727 H-loop/switch region; other site 1311001728 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1311001729 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1311001730 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG3694 1311001731 MarR family; Region: MarR_2; pfam12802 1311001732 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1311001733 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1311001734 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1311001735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1311001736 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 1311001737 ligand binding site [chemical binding]; other site 1311001738 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1311001739 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1311001740 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1311001741 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1311001742 FtsX-like permease family; Region: FtsX; pfam02687 1311001743 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311001744 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311001745 Walker A/P-loop; other site 1311001746 ATP binding site [chemical binding]; other site 1311001747 Q-loop/lid; other site 1311001748 ABC transporter signature motif; other site 1311001749 Walker B; other site 1311001750 D-loop; other site 1311001751 H-loop/switch region; other site 1311001752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1311001753 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1311001754 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 1311001755 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1311001756 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1311001757 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1311001758 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1311001759 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311001760 Walker A/P-loop; other site 1311001761 ATP binding site [chemical binding]; other site 1311001762 Q-loop/lid; other site 1311001763 ABC transporter signature motif; other site 1311001764 Walker B; other site 1311001765 D-loop; other site 1311001766 H-loop/switch region; other site 1311001767 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 1311001768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311001769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311001770 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 1311001771 dimerization interface [polypeptide binding]; other site 1311001772 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1311001773 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1311001774 D-Lactate dehydrogenase and D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH), NAD-binding and catalytic domains; Region: LDH; cd12186 1311001775 D-lactate dehydrogenase; Validated; Region: PRK08605 1311001776 homodimer interface [polypeptide binding]; other site 1311001777 ligand binding site [chemical binding]; other site 1311001778 NAD binding site [chemical binding]; other site 1311001779 catalytic site [active] 1311001780 MFS/sugar transport protein; Region: MFS_2; pfam13347 1311001781 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1311001782 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1311001783 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 1311001784 substrate binding site [chemical binding]; other site 1311001785 ATP binding site [chemical binding]; other site 1311001786 beta-D-glucuronidase; Provisional; Region: PRK10150 1311001787 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1311001788 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1311001789 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1311001790 mannonate dehydratase; Provisional; Region: PRK03906 1311001791 mannonate dehydratase; Region: uxuA; TIGR00695 1311001792 D-mannonate oxidoreductase; Provisional; Region: PRK08277 1311001793 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 1311001794 putative NAD(P) binding site [chemical binding]; other site 1311001795 active site 1311001796 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1311001797 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 1311001798 motif II; other site 1311001799 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1311001800 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1311001801 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 1311001802 active site 1311001803 catabolite control protein A; Region: ccpA; TIGR01481 1311001804 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311001805 DNA binding site [nucleotide binding] 1311001806 domain linker motif; other site 1311001807 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 1311001808 dimerization interface [polypeptide binding]; other site 1311001809 effector binding site; other site 1311001810 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1311001811 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 1311001812 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1311001813 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 1311001814 putative ADP-binding pocket [chemical binding]; other site 1311001815 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1311001816 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 1311001817 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1311001818 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 1311001819 active site 1311001820 dimer interface [polypeptide binding]; other site 1311001821 motif 1; other site 1311001822 motif 2; other site 1311001823 motif 3; other site 1311001824 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 1311001825 anticodon binding site; other site 1311001826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311001827 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 1311001828 active site 1311001829 phosphorylation site [posttranslational modification] 1311001830 intermolecular recognition site; other site 1311001831 dimerization interface [polypeptide binding]; other site 1311001832 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 1311001833 DNA binding site [nucleotide binding] 1311001834 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1311001835 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1311001836 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1311001837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311001838 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 1311001839 dimer interface [polypeptide binding]; other site 1311001840 conserved gate region; other site 1311001841 putative PBP binding loops; other site 1311001842 ABC-ATPase subunit interface; other site 1311001843 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 1311001844 dimer interface [polypeptide binding]; other site 1311001845 conserved gate region; other site 1311001846 putative PBP binding loops; other site 1311001847 ABC-ATPase subunit interface; other site 1311001848 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311001849 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311001850 Walker A/P-loop; other site 1311001851 ATP binding site [chemical binding]; other site 1311001852 Q-loop/lid; other site 1311001853 ABC transporter signature motif; other site 1311001854 Walker B; other site 1311001855 D-loop; other site 1311001856 H-loop/switch region; other site 1311001857 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311001858 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 1311001859 active site 1311001860 phosphorylation site [posttranslational modification] 1311001861 intermolecular recognition site; other site 1311001862 dimerization interface [polypeptide binding]; other site 1311001863 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 1311001864 DNA binding site [nucleotide binding] 1311001865 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1311001866 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1311001867 putative active site [active] 1311001868 heme pocket [chemical binding]; other site 1311001869 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 1311001870 dimer interface [polypeptide binding]; other site 1311001871 phosphorylation site [posttranslational modification] 1311001872 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 1311001873 ATP binding site [chemical binding]; other site 1311001874 Mg2+ binding site [ion binding]; other site 1311001875 G-X-G motif; other site 1311001876 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1311001877 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1311001878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1311001879 ribonuclease III; Reviewed; Region: rnc; PRK00102 1311001880 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 1311001881 dimerization interface [polypeptide binding]; other site 1311001882 active site 1311001883 metal binding site [ion binding]; metal-binding site 1311001884 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 1311001885 dsRNA binding site [nucleotide binding]; other site 1311001886 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1311001887 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1311001888 Walker A/P-loop; other site 1311001889 ATP binding site [chemical binding]; other site 1311001890 Q-loop/lid; other site 1311001891 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1311001892 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1311001893 ABC transporter signature motif; other site 1311001894 Walker B; other site 1311001895 D-loop; other site 1311001896 H-loop/switch region; other site 1311001897 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 1311001898 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311001899 active site 1311001900 motif I; other site 1311001901 motif II; other site 1311001902 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311001903 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 1311001904 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311001905 active site 1311001906 motif I; other site 1311001907 motif II; other site 1311001908 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311001909 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1311001910 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1311001911 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 1311001912 P loop; other site 1311001913 GTP binding site [chemical binding]; other site 1311001914 Predicted membrane protein [Function unknown]; Region: COG3689 1311001915 Predicted permeases [General function prediction only]; Region: COG0701 1311001916 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1311001917 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1311001918 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1311001919 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1311001920 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1311001921 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 1311001922 RNA binding site [nucleotide binding]; other site 1311001923 hypothetical protein; Provisional; Region: PRK04351 1311001924 SprT homologues; Region: SprT; cl01182 1311001925 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1311001926 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1311001927 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1311001928 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 1311001929 Hpr binding site; other site 1311001930 active site 1311001931 homohexamer subunit interaction site [polypeptide binding]; other site 1311001932 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 1311001933 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]; Region: COG4768 1311001934 YtxH-like protein; Region: YtxH; pfam12732 1311001935 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1311001936 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1311001937 Peptidase family U32; Region: Peptidase_U32; pfam01136 1311001938 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1311001939 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1311001940 Peptidase family U32; Region: Peptidase_U32; pfam01136 1311001941 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 1311001942 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 1311001943 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1311001944 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1311001945 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1311001946 catalytic motif [active] 1311001947 Zn binding site [ion binding]; other site 1311001948 RibD C-terminal domain; Region: RibD_C; cl17279 1311001949 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1311001950 Lumazine binding domain; Region: Lum_binding; pfam00677 1311001951 Lumazine binding domain; Region: Lum_binding; pfam00677 1311001952 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1311001953 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1311001954 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1311001955 dimerization interface [polypeptide binding]; other site 1311001956 active site 1311001957 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1311001958 homopentamer interface [polypeptide binding]; other site 1311001959 active site 1311001960 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1311001961 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 1311001962 dimer interface [polypeptide binding]; other site 1311001963 putative anticodon binding site; other site 1311001964 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 1311001965 motif 1; other site 1311001966 active site 1311001967 motif 2; other site 1311001968 motif 3; other site 1311001969 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1311001970 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 1311001971 motif II; other site 1311001972 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 1311001973 catalytic core [active] 1311001974 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 1311001975 putative deacylase active site [active] 1311001976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311001977 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1311001978 NAD(P) binding site [chemical binding]; other site 1311001979 active site 1311001980 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1311001981 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 1311001982 active site 1311001983 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1311001984 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1311001985 HTH-like domain; Region: HTH_21; pfam13276 1311001986 Integrase core domain; Region: rve; pfam00665 1311001987 Integrase core domain; Region: rve_3; cl15866 1311001988 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1311001989 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1311001990 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1311001991 elongation factor Tu; Reviewed; Region: PRK00049 1311001992 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1311001993 G1 box; other site 1311001994 GEF interaction site [polypeptide binding]; other site 1311001995 GTP/Mg2+ binding site [chemical binding]; other site 1311001996 Switch I region; other site 1311001997 G2 box; other site 1311001998 G3 box; other site 1311001999 Switch II region; other site 1311002000 G4 box; other site 1311002001 G5 box; other site 1311002002 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 1311002003 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 1311002004 Antibiotic Binding Site [chemical binding]; other site 1311002005 triosephosphate isomerase; Provisional; Region: PRK14567 1311002006 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 1311002007 substrate binding site [chemical binding]; other site 1311002008 dimer interface [polypeptide binding]; other site 1311002009 catalytic triad [active] 1311002010 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 1311002011 catalytic core [active] 1311002012 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 1311002013 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1311002014 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1311002015 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1311002016 recombination protein RecR; Reviewed; Region: recR; PRK00076 1311002017 RecR protein; Region: RecR; pfam02132 1311002018 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 1311002019 putative active site [active] 1311002020 putative metal-binding site [ion binding]; other site 1311002021 tetramer interface [polypeptide binding]; other site 1311002022 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1311002023 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1311002024 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1311002025 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1311002026 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311002027 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311002028 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1311002029 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 1311002030 putative substrate translocation pore; other site 1311002031 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 1311002032 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1311002033 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1311002034 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1311002035 G1 box; other site 1311002036 putative GEF interaction site [polypeptide binding]; other site 1311002037 GTP/Mg2+ binding site [chemical binding]; other site 1311002038 Switch I region; other site 1311002039 G2 box; other site 1311002040 G3 box; other site 1311002041 Switch II region; other site 1311002042 G4 box; other site 1311002043 G5 box; other site 1311002044 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 1311002045 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1311002046 pentamer interface [polypeptide binding]; other site 1311002047 dodecaamer interface [polypeptide binding]; other site 1311002048 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311002049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311002050 Walker A/P-loop; other site 1311002051 ATP binding site [chemical binding]; other site 1311002052 Q-loop/lid; other site 1311002053 ABC transporter signature motif; other site 1311002054 Walker B; other site 1311002055 D-loop; other site 1311002056 H-loop/switch region; other site 1311002057 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1311002058 dimer interface [polypeptide binding]; other site 1311002059 conserved gate region; other site 1311002060 putative PBP binding loops; other site 1311002061 ABC-ATPase subunit interface; other site 1311002062 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1311002063 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1311002064 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1311002065 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 1311002066 ATP binding site [chemical binding]; other site 1311002067 Mg++ binding site [ion binding]; other site 1311002068 motif III; other site 1311002069 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 1311002070 nucleotide binding region [chemical binding]; other site 1311002071 ATP-binding site [chemical binding]; other site 1311002072 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1311002073 GIY-YIG motif/motif A; other site 1311002074 putative active site [active] 1311002075 putative metal binding site [ion binding]; other site 1311002076 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1311002077 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1311002078 S-adenosylmethionine binding site [chemical binding]; other site 1311002079 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1311002080 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1311002081 putative acyl-acceptor binding pocket; other site 1311002082 SLBB domain; Region: SLBB; pfam10531 1311002083 comEA protein; Region: comE; TIGR01259 1311002084 Fingers domain of DNA polymerase lambda; Region: DNA_pol_lambd_f; pfam10391 1311002085 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1311002086 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1311002087 Competence protein; Region: Competence; pfam03772 1311002088 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1311002089 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1311002090 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 1311002091 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1311002092 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1311002093 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 1311002094 S-adenosylmethionine binding site [chemical binding]; other site 1311002095 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1311002096 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1311002097 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1311002098 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1311002099 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1311002100 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1311002101 beta-galactosidase; Region: BGL; TIGR03356 1311002102 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1311002103 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1311002104 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1311002105 glycerate kinase; Region: TIGR00045 1311002106 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1311002107 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1311002108 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1311002109 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1311002110 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1311002111 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1311002112 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 1311002113 active site 1311002114 trimer interface [polypeptide binding]; other site 1311002115 allosteric site; other site 1311002116 active site lid [active] 1311002117 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1311002118 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1311002119 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1311002120 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1311002121 putative dimer interface [polypeptide binding]; other site 1311002122 N-terminal domain interface [polypeptide binding]; other site 1311002123 putative substrate binding pocket (H-site) [chemical binding]; other site 1311002124 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1311002125 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 1311002126 RNA binding surface [nucleotide binding]; other site 1311002127 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1311002128 active site 1311002129 uracil binding [chemical binding]; other site 1311002130 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311002131 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 1311002132 putative substrate translocation pore; other site 1311002133 Competence protein CoiA-like family; Region: CoiA; pfam06054 1311002134 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 1311002135 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1311002136 active site 1311002137 Zn binding site [ion binding]; other site 1311002138 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1311002139 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 1311002140 motif II; other site 1311002141 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1311002142 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 1311002143 S-adenosylmethionine binding site [chemical binding]; other site 1311002144 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1311002145 Tubby C 2; Region: Tub_2; cl02043 1311002146 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1311002147 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1311002148 motif 1; other site 1311002149 active site 1311002150 motif 2; other site 1311002151 motif 3; other site 1311002152 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1311002153 DHHA1 domain; Region: DHHA1; pfam02272 1311002154 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 1311002155 non-specific DNA binding site [nucleotide binding]; other site 1311002156 salt bridge; other site 1311002157 sequence-specific DNA binding site [nucleotide binding]; other site 1311002158 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 1311002159 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1311002160 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1311002161 dimer interface [polypeptide binding]; other site 1311002162 putative radical transfer pathway; other site 1311002163 diiron center [ion binding]; other site 1311002164 tyrosyl radical; other site 1311002165 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1311002166 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1311002167 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1311002168 active site 1311002169 dimer interface [polypeptide binding]; other site 1311002170 catalytic residues [active] 1311002171 effector binding site; other site 1311002172 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1311002173 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 1311002174 catalytic residues [active] 1311002175 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 1311002176 dimerization domain swap beta strand [polypeptide binding]; other site 1311002177 regulatory protein interface [polypeptide binding]; other site 1311002178 active site 1311002179 regulatory phosphorylation site [posttranslational modification]; other site 1311002180 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1311002181 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1311002182 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1311002183 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1311002184 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1311002185 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 1311002186 tetrameric interface [polypeptide binding]; other site 1311002187 activator binding site; other site 1311002188 NADP binding site [chemical binding]; other site 1311002189 substrate binding site [chemical binding]; other site 1311002190 catalytic residues [active] 1311002191 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1311002192 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1311002193 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1311002194 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1311002195 ATP binding site [chemical binding]; other site 1311002196 putative Mg++ binding site [ion binding]; other site 1311002197 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 1311002198 nucleotide binding region [chemical binding]; other site 1311002199 ATP-binding site [chemical binding]; other site 1311002200 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1311002201 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 1311002202 Sugar specificity; other site 1311002203 Pyrimidine base specificity; other site 1311002204 ATP-binding site [chemical binding]; other site 1311002205 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1311002206 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1311002207 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 1311002208 Walker A motif; other site 1311002209 ATP binding site [chemical binding]; other site 1311002210 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1311002211 Walker B motif; other site 1311002212 arginine finger; other site 1311002213 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1311002214 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 1311002215 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1311002216 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1311002217 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1311002218 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1311002219 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1311002220 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1311002221 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1311002222 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1311002223 Thiamine-precursor transporter protein (ThiW); Region: ThiW; pfam09512 1311002224 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 1311002225 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1311002226 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311002227 Walker A/P-loop; other site 1311002228 ATP binding site [chemical binding]; other site 1311002229 Q-loop/lid; other site 1311002230 ABC transporter signature motif; other site 1311002231 Walker B; other site 1311002232 D-loop; other site 1311002233 H-loop/switch region; other site 1311002234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311002235 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1311002236 Walker A/P-loop; other site 1311002237 ATP binding site [chemical binding]; other site 1311002238 Q-loop/lid; other site 1311002239 ABC transporter signature motif; other site 1311002240 Walker B; other site 1311002241 D-loop; other site 1311002242 H-loop/switch region; other site 1311002243 Cobalt transport protein; Region: CbiQ; cl00463 1311002244 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1311002245 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 1311002246 substrate binding site [chemical binding]; other site 1311002247 dimer interface [polypeptide binding]; other site 1311002248 ATP binding site [chemical binding]; other site 1311002249 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1311002250 substrate binding site [chemical binding]; other site 1311002251 multimerization interface [polypeptide binding]; other site 1311002252 ATP binding site [chemical binding]; other site 1311002253 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1311002254 thiamine phosphate binding site [chemical binding]; other site 1311002255 active site 1311002256 pyrophosphate binding site [ion binding]; other site 1311002257 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1311002258 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 1311002259 hinge; other site 1311002260 active site 1311002261 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1311002262 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311002263 DNA-binding site [nucleotide binding]; DNA binding site 1311002264 DRTGG domain; Region: DRTGG; pfam07085 1311002265 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 1311002266 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 1311002267 active site 1311002268 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1311002269 GtrA-like protein; Region: GtrA; pfam04138 1311002270 Predicted membrane protein [Function unknown]; Region: COG2246 1311002271 Predicted membrane protein [Function unknown]; Region: COG4708 1311002272 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1311002273 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 1311002274 nucleotide binding pocket [chemical binding]; other site 1311002275 K-X-D-G motif; other site 1311002276 catalytic site [active] 1311002277 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1311002278 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1311002279 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 1311002280 Dimer interface [polypeptide binding]; other site 1311002281 BRCT sequence motif; other site 1311002282 putative lipid kinase; Reviewed; Region: PRK13055 1311002283 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1311002284 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 1311002285 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1311002286 carbohydrate binding site [chemical binding]; other site 1311002287 pullulanase, type I; Region: pulA_typeI; TIGR02104 1311002288 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 1311002289 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 1311002290 Ca binding site [ion binding]; other site 1311002291 active site 1311002292 catalytic site [active] 1311002293 glycogen branching enzyme; Provisional; Region: PRK12313 1311002294 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1311002295 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1311002296 active site 1311002297 catalytic site [active] 1311002298 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1311002299 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1311002300 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1311002301 ligand binding site; other site 1311002302 oligomer interface; other site 1311002303 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1311002304 dimer interface [polypeptide binding]; other site 1311002305 N-terminal domain interface [polypeptide binding]; other site 1311002306 sulfate 1 binding site; other site 1311002307 glycogen synthase; Provisional; Region: glgA; PRK00654 1311002308 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1311002309 ADP-binding pocket [chemical binding]; other site 1311002310 homodimer interface [polypeptide binding]; other site 1311002311 F0F1 ATP synthase subunit C; Provisional; Region: PRK13467 1311002312 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1311002313 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1311002314 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1311002315 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1311002316 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1311002317 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1311002318 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1311002319 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1311002320 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 1311002321 beta subunit interaction interface [polypeptide binding]; other site 1311002322 Walker A motif; other site 1311002323 ATP binding site [chemical binding]; other site 1311002324 Walker B motif; other site 1311002325 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1311002326 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1311002327 core domain interface [polypeptide binding]; other site 1311002328 delta subunit interface [polypeptide binding]; other site 1311002329 epsilon subunit interface [polypeptide binding]; other site 1311002330 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1311002331 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1311002332 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 1311002333 alpha subunit interaction interface [polypeptide binding]; other site 1311002334 Walker A motif; other site 1311002335 ATP binding site [chemical binding]; other site 1311002336 Walker B motif; other site 1311002337 inhibitor binding site; inhibition site 1311002338 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1311002339 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1311002340 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1311002341 gamma subunit interface [polypeptide binding]; other site 1311002342 epsilon subunit interface [polypeptide binding]; other site 1311002343 LBP interface [polypeptide binding]; other site 1311002344 conserved hypothetical integral membrane protein; Region: int_mem_ywzB; TIGR02327 1311002345 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1311002346 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 1311002347 hinge; other site 1311002348 active site 1311002349 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1311002350 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 1311002351 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1311002352 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1311002353 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1311002354 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 1311002355 dimer interface [polypeptide binding]; other site 1311002356 motif 1; other site 1311002357 active site 1311002358 motif 2; other site 1311002359 motif 3; other site 1311002360 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1311002361 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 1311002362 putative tRNA-binding site [nucleotide binding]; other site 1311002363 B3/4 domain; Region: B3_4; pfam03483 1311002364 tRNA synthetase B5 domain; Region: B5; smart00874 1311002365 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 1311002366 dimer interface [polypeptide binding]; other site 1311002367 motif 1; other site 1311002368 motif 3; other site 1311002369 motif 2; other site 1311002370 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1311002371 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1311002372 Predicted metalloprotease [General function prediction only]; Region: COG2321 1311002373 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1311002374 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1311002375 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1311002376 Part of AAA domain; Region: AAA_19; pfam13245 1311002377 Family description; Region: UvrD_C_2; pfam13538 1311002378 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1311002379 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1311002380 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1311002381 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1311002382 G1 box; other site 1311002383 GTP/Mg2+ binding site [chemical binding]; other site 1311002384 Switch I region; other site 1311002385 G2 box; other site 1311002386 Switch II region; other site 1311002387 G3 box; other site 1311002388 G4 box; other site 1311002389 G5 box; other site 1311002390 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1311002391 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1311002392 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311002393 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311002394 ABC transporter; Region: ABC_tran_2; pfam12848 1311002395 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311002396 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1311002397 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 1311002398 tetramer interface [polypeptide binding]; other site 1311002399 TPP-binding site [chemical binding]; other site 1311002400 heterodimer interface [polypeptide binding]; other site 1311002401 phosphorylation loop region [posttranslational modification] 1311002402 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1311002403 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 1311002404 alpha subunit interface [polypeptide binding]; other site 1311002405 TPP binding site [chemical binding]; other site 1311002406 heterodimer interface [polypeptide binding]; other site 1311002407 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1311002408 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1311002409 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 1311002410 E3 interaction surface; other site 1311002411 lipoyl attachment site [posttranslational modification]; other site 1311002412 e3 binding domain; Region: E3_binding; pfam02817 1311002413 e3 binding domain; Region: E3_binding; pfam02817 1311002414 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1311002415 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 1311002416 E3 interaction surface; other site 1311002417 lipoyl attachment site [posttranslational modification]; other site 1311002418 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1311002419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311002420 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311002421 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1311002422 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1311002423 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1311002424 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1311002425 catalytic triad [active] 1311002426 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1311002427 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311002428 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1311002429 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1311002430 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1311002431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1311002432 YbbR-like protein; Region: YbbR; pfam07949 1311002433 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1311002434 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 1311002435 active site 1311002436 substrate binding site [chemical binding]; other site 1311002437 metal binding site [ion binding]; metal-binding site 1311002438 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1311002439 conserved hypothetical protein; Region: TIGR02328 1311002440 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1311002441 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1311002442 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 1311002443 FeS/SAM binding site; other site 1311002444 HemN C-terminal domain; Region: HemN_C; pfam06969 1311002445 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1311002446 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 1311002447 active site 1311002448 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 1311002449 active site 2 [active] 1311002450 active site 1 [active] 1311002451 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1311002452 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 1311002453 active site 1311002454 motif I; other site 1311002455 motif II; other site 1311002456 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 1311002457 Protein of unknown function (DUF1461); Region: DUF1461; pfam07314 1311002458 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 1311002459 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 1311002460 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 1311002461 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1311002462 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1311002463 active site 1311002464 multimer interface [polypeptide binding]; other site 1311002465 GTP-binding protein LepA; Provisional; Region: PRK05433 1311002466 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1311002467 G1 box; other site 1311002468 putative GEF interaction site [polypeptide binding]; other site 1311002469 GTP/Mg2+ binding site [chemical binding]; other site 1311002470 Switch I region; other site 1311002471 G2 box; other site 1311002472 G3 box; other site 1311002473 Switch II region; other site 1311002474 G4 box; other site 1311002475 G5 box; other site 1311002476 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 1311002477 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 1311002478 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1311002479 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1311002480 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311002481 Zn2+ binding site [ion binding]; other site 1311002482 Mg2+ binding site [ion binding]; other site 1311002483 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1311002484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311002485 Coenzyme A binding pocket [chemical binding]; other site 1311002486 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1311002487 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1311002488 SelR domain; Region: SelR; pfam01641 1311002489 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1311002490 trimer interface [polypeptide binding]; other site 1311002491 active site 1311002492 substrate binding site [chemical binding]; other site 1311002493 CoA binding site [chemical binding]; other site 1311002494 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1311002495 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1311002496 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1311002497 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1311002498 Walker A/P-loop; other site 1311002499 ATP binding site [chemical binding]; other site 1311002500 Q-loop/lid; other site 1311002501 ABC transporter signature motif; other site 1311002502 Walker B; other site 1311002503 D-loop; other site 1311002504 H-loop/switch region; other site 1311002505 Predicted transcriptional regulators [Transcription]; Region: COG1725 1311002506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311002507 DNA-binding site [nucleotide binding]; DNA binding site 1311002508 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1311002509 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1311002510 active site 1311002511 PHP Thumb interface [polypeptide binding]; other site 1311002512 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 1311002513 generic binding surface II; other site 1311002514 generic binding surface I; other site 1311002515 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 1311002516 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1311002517 active site 1311002518 ADP/pyrophosphate binding site [chemical binding]; other site 1311002519 dimerization interface [polypeptide binding]; other site 1311002520 allosteric effector site; other site 1311002521 fructose-1,6-bisphosphate binding site; other site 1311002522 pyruvate kinase; Provisional; Region: PRK05826 1311002523 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1311002524 domain interfaces; other site 1311002525 active site 1311002526 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1311002527 Peptidase S24-like; Region: Peptidase_S24; pfam00717 1311002528 Catalytic site [active] 1311002529 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 1311002530 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1311002531 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 1311002532 glutaminase active site [active] 1311002533 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 1311002534 dimer interface [polypeptide binding]; other site 1311002535 active site 1311002536 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 1311002537 dimer interface [polypeptide binding]; other site 1311002538 active site 1311002539 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1311002540 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1311002541 PhnA protein; Region: PhnA; pfam03831 1311002542 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 1311002543 dimer interface [polypeptide binding]; other site 1311002544 conserved gate region; other site 1311002545 putative PBP binding loops; other site 1311002546 ABC-ATPase subunit interface; other site 1311002547 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311002548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311002549 Walker A/P-loop; other site 1311002550 ATP binding site [chemical binding]; other site 1311002551 Q-loop/lid; other site 1311002552 ABC transporter signature motif; other site 1311002553 Walker B; other site 1311002554 D-loop; other site 1311002555 H-loop/switch region; other site 1311002556 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311002557 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 1311002558 substrate binding pocket [chemical binding]; other site 1311002559 membrane-bound complex binding site; other site 1311002560 hinge residues; other site 1311002561 putative transposase OrfB; Reviewed; Region: PHA02517 1311002562 HTH-like domain; Region: HTH_21; pfam13276 1311002563 Integrase core domain; Region: rve; pfam00665 1311002564 Integrase core domain; Region: rve_3; cl15866 1311002565 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1311002566 pantothenate kinase; Provisional; Region: PRK05439 1311002567 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1311002568 ATP-binding site [chemical binding]; other site 1311002569 CoA-binding site [chemical binding]; other site 1311002570 Mg2+-binding site [ion binding]; other site 1311002571 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1311002572 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 1311002573 S-adenosylmethionine binding site [chemical binding]; other site 1311002574 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311002575 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 1311002576 TM-ABC transporter signature motif; other site 1311002577 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311002578 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 1311002579 TM-ABC transporter signature motif; other site 1311002580 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1311002581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311002582 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311002583 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1311002584 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1311002585 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311002586 NAD binding site [chemical binding]; other site 1311002587 dimer interface [polypeptide binding]; other site 1311002588 substrate binding site [chemical binding]; other site 1311002589 DNA gyrase subunit A; Validated; Region: PRK05560 1311002590 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1311002591 CAP-like domain; other site 1311002592 active site 1311002593 primary dimer interface [polypeptide binding]; other site 1311002594 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002595 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002596 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002597 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002598 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002599 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311002600 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 1311002601 active site 1311002602 catalytic site [active] 1311002603 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 1311002604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311002605 putative metal binding site [ion binding]; other site 1311002606 Predicted secreted protein [Function unknown]; Region: COG4086 1311002607 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1311002608 GMP synthase; Reviewed; Region: guaA; PRK00074 1311002609 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1311002610 AMP/PPi binding site [chemical binding]; other site 1311002611 candidate oxyanion hole; other site 1311002612 catalytic triad [active] 1311002613 potential glutamine specificity residues [chemical binding]; other site 1311002614 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 1311002615 ATP Binding subdomain [chemical binding]; other site 1311002616 Dimerization subdomain; other site 1311002617 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1311002618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311002619 DNA-binding site [nucleotide binding]; DNA binding site 1311002620 UTRA domain; Region: UTRA; pfam07702 1311002621 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1311002622 Glucose inhibited division protein A; Region: GIDA; pfam01134 1311002623 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311002624 Coenzyme A binding pocket [chemical binding]; other site 1311002625 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1311002626 Active site serine [active] 1311002627 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311002628 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311002629 Walker A/P-loop; other site 1311002630 ATP binding site [chemical binding]; other site 1311002631 Q-loop/lid; other site 1311002632 ABC transporter signature motif; other site 1311002633 Walker B; other site 1311002634 D-loop; other site 1311002635 H-loop/switch region; other site 1311002636 FtsX-like permease family; Region: FtsX; pfam02687 1311002637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311002638 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 1311002639 active site 1311002640 phosphorylation site [posttranslational modification] 1311002641 intermolecular recognition site; other site 1311002642 dimerization interface [polypeptide binding]; other site 1311002643 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 1311002644 DNA binding site [nucleotide binding] 1311002645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311002646 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 1311002647 ATP binding site [chemical binding]; other site 1311002648 Mg2+ binding site [ion binding]; other site 1311002649 G-X-G motif; other site 1311002650 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1311002651 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 1311002652 active site 1311002653 DNA binding site [nucleotide binding] 1311002654 Int/Topo IB signature motif; other site 1311002655 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1311002656 signal recognition particle protein; Provisional; Region: PRK10867 1311002657 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1311002658 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 1311002659 P loop; other site 1311002660 GTP binding site [chemical binding]; other site 1311002661 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1311002662 putative DNA-binding protein; Validated; Region: PRK00118 1311002663 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1311002664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311002665 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 1311002666 dimer interface [polypeptide binding]; other site 1311002667 phosphorylation site [posttranslational modification] 1311002668 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 1311002669 ATP binding site [chemical binding]; other site 1311002670 Mg2+ binding site [ion binding]; other site 1311002671 G-X-G motif; other site 1311002672 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311002673 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 1311002674 active site 1311002675 phosphorylation site [posttranslational modification] 1311002676 intermolecular recognition site; other site 1311002677 dimerization interface [polypeptide binding]; other site 1311002678 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 1311002679 DNA binding site [nucleotide binding] 1311002680 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1311002681 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1311002682 Zn binding site [ion binding]; other site 1311002683 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1311002684 PhoU domain; Region: PhoU; pfam01895 1311002685 PhoU domain; Region: PhoU; pfam01895 1311002686 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1311002687 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1311002688 Walker A/P-loop; other site 1311002689 ATP binding site [chemical binding]; other site 1311002690 Q-loop/lid; other site 1311002691 ABC transporter signature motif; other site 1311002692 Walker B; other site 1311002693 D-loop; other site 1311002694 H-loop/switch region; other site 1311002695 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1311002696 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1311002697 Walker A/P-loop; other site 1311002698 ATP binding site [chemical binding]; other site 1311002699 Q-loop/lid; other site 1311002700 ABC transporter signature motif; other site 1311002701 Walker B; other site 1311002702 D-loop; other site 1311002703 H-loop/switch region; other site 1311002704 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1311002705 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 1311002706 dimer interface [polypeptide binding]; other site 1311002707 conserved gate region; other site 1311002708 putative PBP binding loops; other site 1311002709 ABC-ATPase subunit interface; other site 1311002710 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1311002711 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 1311002712 dimer interface [polypeptide binding]; other site 1311002713 conserved gate region; other site 1311002714 putative PBP binding loops; other site 1311002715 ABC-ATPase subunit interface; other site 1311002716 PBP superfamily domain; Region: PBP_like_2; cl17296 1311002717 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1311002718 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1311002719 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 1311002720 active site 1311002721 hypothetical protein; Provisional; Region: PRK04387 1311002722 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 1311002723 ArsC family; Region: ArsC; pfam03960 1311002724 putative catalytic residues [active] 1311002725 thiol/disulfide switch; other site 1311002726 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1311002727 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1311002728 active site 1311002729 Riboflavin kinase; Region: Flavokinase; smart00904 1311002730 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1311002731 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1311002732 RNA binding site [nucleotide binding]; other site 1311002733 active site 1311002734 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1311002735 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1311002736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311002737 Coenzyme A binding pocket [chemical binding]; other site 1311002738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1311002739 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1311002740 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1311002741 CAAX protease self-immunity; Region: Abi; pfam02517 1311002742 FtsX-like permease family; Region: FtsX; pfam02687 1311002743 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311002744 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1311002745 FtsX-like permease family; Region: FtsX; pfam02687 1311002746 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311002747 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311002748 Walker A/P-loop; other site 1311002749 ATP binding site [chemical binding]; other site 1311002750 Q-loop/lid; other site 1311002751 ABC transporter signature motif; other site 1311002752 Walker B; other site 1311002753 D-loop; other site 1311002754 H-loop/switch region; other site 1311002755 DNA topoisomerase I; Validated; Region: PRK05582 1311002756 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 1311002757 active site 1311002758 interdomain interaction site; other site 1311002759 putative metal-binding site [ion binding]; other site 1311002760 nucleotide binding site [chemical binding]; other site 1311002761 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 1311002762 domain I; other site 1311002763 DNA binding groove [nucleotide binding] 1311002764 phosphate binding site [ion binding]; other site 1311002765 domain II; other site 1311002766 domain III; other site 1311002767 nucleotide binding site [chemical binding]; other site 1311002768 catalytic site [active] 1311002769 domain IV; other site 1311002770 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311002771 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1311002772 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 1311002773 putative ligand binding residues [chemical binding]; other site 1311002774 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1311002775 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1311002776 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311002777 Walker A/P-loop; other site 1311002778 ATP binding site [chemical binding]; other site 1311002779 Q-loop/lid; other site 1311002780 ABC transporter signature motif; other site 1311002781 Walker B; other site 1311002782 D-loop; other site 1311002783 H-loop/switch region; other site 1311002784 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311002785 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 1311002786 ABC-ATPase subunit interface; other site 1311002787 dimer interface [polypeptide binding]; other site 1311002788 putative PBP binding regions; other site 1311002789 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1311002790 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 1311002791 ABC-ATPase subunit interface; other site 1311002792 dimer interface [polypeptide binding]; other site 1311002793 putative PBP binding regions; other site 1311002794 maltose O-acetyltransferase; Provisional; Region: PRK10092 1311002795 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1311002796 active site 1311002797 substrate binding site [chemical binding]; other site 1311002798 trimer interface [polypeptide binding]; other site 1311002799 CoA binding site [chemical binding]; other site 1311002800 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1311002801 RNA/DNA hybrid binding site [nucleotide binding]; other site 1311002802 active site 1311002803 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1311002804 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1311002805 GTP/Mg2+ binding site [chemical binding]; other site 1311002806 G4 box; other site 1311002807 G5 box; other site 1311002808 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1311002809 G1 box; other site 1311002810 G1 box; other site 1311002811 GTP/Mg2+ binding site [chemical binding]; other site 1311002812 Switch I region; other site 1311002813 G2 box; other site 1311002814 G2 box; other site 1311002815 G3 box; other site 1311002816 G3 box; other site 1311002817 Switch II region; other site 1311002818 Switch II region; other site 1311002819 G5 box; other site 1311002820 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1311002821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1311002822 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1311002823 Carbon starvation protein CstA; Region: CstA; pfam02554 1311002824 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1311002825 two-component response regulator; Provisional; Region: PRK14084 1311002826 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 1311002827 active site 1311002828 phosphorylation site [posttranslational modification] 1311002829 intermolecular recognition site; other site 1311002830 dimerization interface [polypeptide binding]; other site 1311002831 LytTr DNA-binding domain; Region: LytTR; pfam04397 1311002832 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1311002833 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1311002834 GAF domain; Region: GAF_3; pfam13492 1311002835 Histidine kinase; Region: His_kinase; pfam06580 1311002836 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 1311002837 Mg2+ binding site [ion binding]; other site 1311002838 G-X-G motif; other site 1311002839 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1311002840 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1311002841 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1311002842 nucleophilic elbow; other site 1311002843 catalytic triad; other site 1311002844 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1311002845 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311002846 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1311002847 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1311002848 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1311002849 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311002850 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 1311002851 IMP binding site; other site 1311002852 dimer interface [polypeptide binding]; other site 1311002853 interdomain contacts; other site 1311002854 partial ornithine binding site; other site 1311002855 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1311002856 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1311002857 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1311002858 catalytic site [active] 1311002859 subunit interface [polypeptide binding]; other site 1311002860 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1311002861 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1311002862 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1311002863 dihydroorotase; Validated; Region: pyrC; PRK09357 1311002864 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 1311002865 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 1311002866 active site 1311002867 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311002868 active site 1311002869 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1311002870 active site 1311002871 dimer interface [polypeptide binding]; other site 1311002872 ATP cone domain; Region: ATP-cone; pfam03477 1311002873 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1311002874 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1311002875 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1311002876 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1311002877 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1311002878 putative active site [active] 1311002879 catalytic site [active] 1311002880 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1311002881 putative active site [active] 1311002882 catalytic site [active] 1311002883 putative transposase OrfB; Reviewed; Region: PHA02517 1311002884 HTH-like domain; Region: HTH_21; pfam13276 1311002885 Integrase core domain; Region: rve; pfam00665 1311002886 Integrase core domain; Region: rve_3; cl15866 1311002887 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1311002888 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 1311002889 Potassium binding sites [ion binding]; other site 1311002890 Cesium cation binding sites [ion binding]; other site 1311002891 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1311002892 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1311002893 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1311002894 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1311002895 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; cl00195 1311002896 hypothetical protein; Provisional; Region: PRK04143 1311002897 ADP-ribose binding site [chemical binding]; other site 1311002898 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 1311002899 lipoyl attachment site [posttranslational modification]; other site 1311002900 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1311002901 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1311002902 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1311002903 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1311002904 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 1311002905 putative active site [active] 1311002906 putative FMN binding site [chemical binding]; other site 1311002907 putative substrate binding site [chemical binding]; other site 1311002908 putative catalytic residue [active] 1311002909 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1311002910 phosphopantothenate--cysteine ligase; Validated; Region: PRK06732 1311002911 phosphopantothenoylcysteine decarboxylase, streptococcal; Region: coaC_strep; TIGR02113 1311002912 Flavoprotein; Region: Flavoprotein; pfam02441 1311002913 Predicted membrane protein [Function unknown]; Region: COG4684 1311002914 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1311002915 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 1311002916 active site 1311002917 substrate binding site [chemical binding]; other site 1311002918 metal binding site [ion binding]; metal-binding site 1311002919 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1311002920 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311002921 catalytic residue [active] 1311002922 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1311002923 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1311002924 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 1311002925 dimer interface [polypeptide binding]; other site 1311002926 active site 1311002927 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1311002928 folate binding site [chemical binding]; other site 1311002929 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1311002930 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1311002931 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 1311002932 S-adenosylmethionine binding site [chemical binding]; other site 1311002933 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1311002934 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1311002935 RF-1 domain; Region: RF-1; pfam00472 1311002936 thymidine kinase; Provisional; Region: PRK04296 1311002937 4-oxalocrotonate tautomerase; Provisional; Region: PRK02289 1311002938 active site 1 [active] 1311002939 dimer interface [polypeptide binding]; other site 1311002940 hexamer interface [polypeptide binding]; other site 1311002941 active site 2 [active] 1311002942 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1311002943 ApbE family; Region: ApbE; pfam02424 1311002944 Predicted flavoprotein [General function prediction only]; Region: COG0431 1311002945 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1311002946 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1311002947 xanthine permease; Region: pbuX; TIGR03173 1311002948 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1311002949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311002950 active site 1311002951 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1311002952 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1311002953 active site 1311002954 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311002955 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 1311002956 RNA binding surface [nucleotide binding]; other site 1311002957 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311002958 active site 1311002959 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK04885 1311002960 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1311002961 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1311002962 synthetase active site [active] 1311002963 NTP binding site [chemical binding]; other site 1311002964 metal binding site [ion binding]; metal-binding site 1311002965 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1311002966 putative active site [active] 1311002967 putative metal binding residues [ion binding]; other site 1311002968 signature motif; other site 1311002969 putative triphosphate binding site [ion binding]; other site 1311002970 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1311002971 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1311002972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311002973 active site 1311002974 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1311002975 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1311002976 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311002977 catalytic residue [active] 1311002978 Putative amino acid metabolism; Region: DUF1831; pfam08866 1311002979 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1311002980 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1311002981 CoA binding domain; Region: CoA_binding; pfam02629 1311002982 hypothetical protein; Reviewed; Region: PRK00024 1311002983 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1311002984 MPN+ (JAMM) motif; other site 1311002985 Zinc-binding site [ion binding]; other site 1311002986 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1311002987 Predicted transcriptional regulators [Transcription]; Region: COG1695 1311002988 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1311002989 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1311002990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1311002991 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1311002992 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 1311002993 active site 1311002994 catalytic triad [active] 1311002995 oxyanion hole [active] 1311002996 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1311002997 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1311002998 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1311002999 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 1311003000 dimer interface [polypeptide binding]; other site 1311003001 conserved gate region; other site 1311003002 putative PBP binding loops; other site 1311003003 ABC-ATPase subunit interface; other site 1311003004 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 1311003005 dimer interface [polypeptide binding]; other site 1311003006 conserved gate region; other site 1311003007 putative PBP binding loops; other site 1311003008 ABC-ATPase subunit interface; other site 1311003009 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1311003010 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1311003011 Walker A/P-loop; other site 1311003012 ATP binding site [chemical binding]; other site 1311003013 Q-loop/lid; other site 1311003014 ABC transporter signature motif; other site 1311003015 Walker B; other site 1311003016 D-loop; other site 1311003017 H-loop/switch region; other site 1311003018 TOBE domain; Region: TOBE_2; pfam08402 1311003019 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1311003020 FAD binding domain; Region: FAD_binding_4; pfam01565 1311003021 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1311003022 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 1311003023 catalytic center binding site [active] 1311003024 ATP binding site [chemical binding]; other site 1311003025 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 1311003026 homooctamer interface [polypeptide binding]; other site 1311003027 active site 1311003028 dihydropteroate synthase; Region: DHPS; TIGR01496 1311003029 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 1311003030 substrate binding pocket [chemical binding]; other site 1311003031 dimer interface [polypeptide binding]; other site 1311003032 inhibitor binding site; inhibition site 1311003033 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 1311003034 homodecamer interface [polypeptide binding]; other site 1311003035 GTP cyclohydrolase I; Provisional; Region: PLN03044 1311003036 active site 1311003037 putative catalytic site residues [active] 1311003038 zinc binding site [ion binding]; other site 1311003039 GTP-CH-I/GFRP interaction surface; other site 1311003040 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1311003041 SNF2 Helicase protein; Region: DUF3670; pfam12419 1311003042 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1311003043 homoserine kinase; Provisional; Region: PRK01212 1311003044 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1311003045 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311003046 homoserine dehydrogenase; Provisional; Region: PRK06349 1311003047 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1311003048 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1311003049 BCCT family transporter; Region: BCCT; pfam02028 1311003050 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1311003051 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1311003052 NAD(P) binding site [chemical binding]; other site 1311003053 catalytic residues [active] 1311003054 Predicted membrane protein [Function unknown]; Region: COG2855 1311003055 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 1311003056 non-specific DNA binding site [nucleotide binding]; other site 1311003057 salt bridge; other site 1311003058 sequence-specific DNA binding site [nucleotide binding]; other site 1311003059 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1311003060 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1311003061 dimer interface [polypeptide binding]; other site 1311003062 catalytic triad [active] 1311003063 peroxidatic and resolving cysteines [active] 1311003064 putative transposase OrfB; Reviewed; Region: PHA02517 1311003065 HTH-like domain; Region: HTH_21; pfam13276 1311003066 Integrase core domain; Region: rve; pfam00665 1311003067 Integrase core domain; Region: rve_3; cl15866 1311003068 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311003069 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1311003070 active site 1311003071 motif I; other site 1311003072 motif II; other site 1311003073 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1311003074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311003075 DNA-binding site [nucleotide binding]; DNA binding site 1311003076 TrkA-C domain; Region: TrkA_C; pfam02080 1311003077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1311003078 CsbD-like; Region: CsbD; pfam05532 1311003079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1311003080 Small integral membrane protein [Function unknown]; Region: COG5547 1311003081 Predicted membrane protein [Function unknown]; Region: COG2261 1311003082 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1311003083 Part of AAA domain; Region: AAA_19; pfam13245 1311003084 AAA domain; Region: AAA_12; pfam13087 1311003085 Family description; Region: UvrD_C_2; pfam13538 1311003086 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 1311003087 CoenzymeA binding site [chemical binding]; other site 1311003088 subunit interaction site [polypeptide binding]; other site 1311003089 PHB binding site; other site 1311003090 uracil transporter; Provisional; Region: PRK10720 1311003091 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1311003092 amino acid carrier protein; Region: agcS; TIGR00835 1311003093 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1311003094 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1311003095 LrgB-like family; Region: LrgB; pfam04172 1311003096 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1311003097 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1311003098 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1311003099 RNA binding site [nucleotide binding]; other site 1311003100 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1311003101 RNA binding site [nucleotide binding]; other site 1311003102 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 1311003103 RNA binding site [nucleotide binding]; other site 1311003104 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...; Region: S1_RPS1_repeat_hs4; cd05692 1311003105 RNA binding site [nucleotide binding]; other site 1311003106 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1311003107 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1311003108 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 1311003109 homodimer interface [polypeptide binding]; other site 1311003110 substrate-cofactor binding pocket; other site 1311003111 catalytic residue [active] 1311003112 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1311003113 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1311003114 CAP-like domain; other site 1311003115 active site 1311003116 primary dimer interface [polypeptide binding]; other site 1311003117 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1311003118 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1311003119 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 1311003120 Mg2+ binding site [ion binding]; other site 1311003121 G-X-G motif; other site 1311003122 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 1311003123 anchoring element; other site 1311003124 dimer interface [polypeptide binding]; other site 1311003125 ATP binding site [chemical binding]; other site 1311003126 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 1311003127 active site 1311003128 putative metal-binding site [ion binding]; other site 1311003129 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1311003130 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1311003131 putative transposase OrfB; Reviewed; Region: PHA02517 1311003132 HTH-like domain; Region: HTH_21; pfam13276 1311003133 Integrase core domain; Region: rve; pfam00665 1311003134 Integrase core domain; Region: rve_3; cl15866 1311003135 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1311003136 ligand binding site [chemical binding]; other site 1311003137 active site 1311003138 UGI interface [polypeptide binding]; other site 1311003139 catalytic site [active] 1311003140 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1311003141 ligand binding site; other site 1311003142 tetramer interface; other site 1311003143 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 1311003144 active site 1311003145 catalytic triad [active] 1311003146 oxyanion hole [active] 1311003147 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1311003148 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1311003149 putative trimer interface [polypeptide binding]; other site 1311003150 putative CoA binding site [chemical binding]; other site 1311003151 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1311003152 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1311003153 active site 1311003154 homodimer interface [polypeptide binding]; other site 1311003155 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1311003156 NeuB family; Region: NeuB; pfam03102 1311003157 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1311003158 NeuB binding interface [polypeptide binding]; other site 1311003159 putative substrate binding site [chemical binding]; other site 1311003160 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1311003161 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 1311003162 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1311003163 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1311003164 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311003165 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 1311003166 active site 1311003167 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311003168 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1311003169 active site 1311003170 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 1311003171 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 1311003172 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1311003173 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1311003174 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1311003175 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1311003176 Chain length determinant protein; Region: Wzz; cl15801 1311003177 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1311003178 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 1311003179 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 1311003180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311003181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311003182 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 1311003183 dimerization interface [polypeptide binding]; other site 1311003184 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 1311003185 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 1311003186 ArsC family; Region: ArsC; pfam03960 1311003187 catalytic residues [active] 1311003188 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 1311003189 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311003190 active site 1311003191 dimer interface [polypeptide binding]; other site 1311003192 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 1311003193 active site 1311003194 S-formylglutathione hydrolase; Region: PLN02442 1311003195 Predicted esterase [General function prediction only]; Region: COG0627 1311003196 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1311003197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1311003198 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1311003199 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 1311003200 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311003201 TM-ABC transporter signature motif; other site 1311003202 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 1311003203 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1311003204 zinc binding site [ion binding]; other site 1311003205 putative ligand binding site [chemical binding]; other site 1311003206 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1311003207 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1311003208 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 1311003209 acetolactate synthase; Reviewed; Region: PRK08617 1311003210 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1311003211 PYR/PP interface [polypeptide binding]; other site 1311003212 dimer interface [polypeptide binding]; other site 1311003213 TPP binding site [chemical binding]; other site 1311003214 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1311003215 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1311003216 TPP-binding site [chemical binding]; other site 1311003217 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1311003218 binding surface 1311003219 TPR motif; other site 1311003220 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1311003221 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1311003222 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1311003223 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_29; cd04688 1311003224 nudix motif; other site 1311003225 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 1311003226 putative active site [active] 1311003227 nucleotide binding site [chemical binding]; other site 1311003228 nudix motif; other site 1311003229 putative metal binding site [ion binding]; other site 1311003230 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 1311003231 substrate binding site [chemical binding]; other site 1311003232 catalytic residues [active] 1311003233 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1311003234 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1311003235 NAD binding site [chemical binding]; other site 1311003236 substrate binding site [chemical binding]; other site 1311003237 homodimer interface [polypeptide binding]; other site 1311003238 active site 1311003239 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1311003240 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1311003241 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1311003242 substrate binding site; other site 1311003243 tetramer interface; other site 1311003244 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1311003245 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1311003246 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1311003247 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1311003248 Family of unknown function (DUF633); Region: DUF633; pfam04816 1311003249 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1311003250 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 1311003251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311003252 active site 1311003253 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1311003254 DHH family; Region: DHH; pfam01368 1311003255 DHHA1 domain; Region: DHHA1; pfam02272 1311003256 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; pfam10141 1311003257 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1311003258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311003259 NAD(P) binding site [chemical binding]; other site 1311003260 active site 1311003261 ribonuclease Z; Region: RNase_Z; TIGR02651 1311003262 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 1311003263 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1311003264 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1311003265 HflX GTPase family; Region: HflX; cd01878 1311003266 G1 box; other site 1311003267 GTP/Mg2+ binding site [chemical binding]; other site 1311003268 Switch I region; other site 1311003269 G2 box; other site 1311003270 G3 box; other site 1311003271 Switch II region; other site 1311003272 G4 box; other site 1311003273 G5 box; other site 1311003274 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1311003275 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1311003276 hypothetical protein; Provisional; Region: PRK07329 1311003277 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1311003278 active site 1311003279 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1311003280 putative uracil binding site [chemical binding]; other site 1311003281 putative active site [active] 1311003282 dipeptidase PepV; Reviewed; Region: PRK07318 1311003283 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1311003284 active site 1311003285 metal binding site [ion binding]; metal-binding site 1311003286 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 1311003287 dimer interface [polypeptide binding]; other site 1311003288 FMN binding site [chemical binding]; other site 1311003289 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 1311003290 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 1311003291 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1311003292 putative active site [active] 1311003293 catalytic site [active] 1311003294 putative metal binding site [ion binding]; other site 1311003295 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1311003296 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1311003297 GIY-YIG motif/motif A; other site 1311003298 active site 1311003299 catalytic site [active] 1311003300 putative DNA binding site [nucleotide binding]; other site 1311003301 metal binding site [ion binding]; metal-binding site 1311003302 UvrB/uvrC motif; Region: UVR; pfam02151 1311003303 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1311003304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1311003305 multidrug efflux protein; Reviewed; Region: PRK01766 1311003306 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1311003307 cation binding site [ion binding]; other site 1311003308 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1311003309 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1311003310 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1311003311 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 1311003312 core dimer interface [polypeptide binding]; other site 1311003313 L10 interface [polypeptide binding]; other site 1311003314 L11 interface [polypeptide binding]; other site 1311003315 putative EF-Tu interaction site [polypeptide binding]; other site 1311003316 putative EF-G interaction site [polypeptide binding]; other site 1311003317 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 1311003318 23S rRNA interface [nucleotide binding]; other site 1311003319 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1311003320 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 1311003321 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1311003322 Walker A motif; other site 1311003323 ATP binding site [chemical binding]; other site 1311003324 Walker B motif; other site 1311003325 arginine finger; other site 1311003326 UvrB/uvrC motif; Region: UVR; pfam02151 1311003327 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 1311003328 Walker A motif; other site 1311003329 ATP binding site [chemical binding]; other site 1311003330 Walker B motif; other site 1311003331 arginine finger; other site 1311003332 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1311003333 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 1311003334 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1311003335 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 1311003336 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1311003337 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311003338 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1311003339 G1 box; other site 1311003340 GTP/Mg2+ binding site [chemical binding]; other site 1311003341 Switch I region; other site 1311003342 G2 box; other site 1311003343 G3 box; other site 1311003344 Switch II region; other site 1311003345 G4 box; other site 1311003346 G5 box; other site 1311003347 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1311003348 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1311003349 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 1311003350 Walker A motif; other site 1311003351 ATP binding site [chemical binding]; other site 1311003352 Walker B motif; other site 1311003353 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1311003354 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1311003355 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 1311003356 folate binding site [chemical binding]; other site 1311003357 NADP+ binding site [chemical binding]; other site 1311003358 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1311003359 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 1311003360 dimerization interface [polypeptide binding]; other site 1311003361 active site 1311003362 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1311003363 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1311003364 dimer interface [polypeptide binding]; other site 1311003365 active site 1311003366 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1311003367 homodimer interface [polypeptide binding]; other site 1311003368 catalytic residues [active] 1311003369 NAD binding site [chemical binding]; other site 1311003370 substrate binding pocket [chemical binding]; other site 1311003371 flexible flap; other site 1311003372 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1311003373 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1311003374 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1311003375 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1311003376 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1311003377 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1311003378 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 1311003379 homotetramer interface [polypeptide binding]; other site 1311003380 FMN binding site [chemical binding]; other site 1311003381 homodimer contacts [polypeptide binding]; other site 1311003382 putative active site [active] 1311003383 putative substrate binding site [chemical binding]; other site 1311003384 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1311003385 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1311003386 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311003387 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1311003388 diphosphomevalonate decarboxylase; Region: PLN02407 1311003389 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 1311003390 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1311003391 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311003392 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 1311003393 dimer interface [polypeptide binding]; other site 1311003394 phosphorylation site [posttranslational modification] 1311003395 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 1311003396 ATP binding site [chemical binding]; other site 1311003397 Mg2+ binding site [ion binding]; other site 1311003398 G-X-G motif; other site 1311003399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311003400 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 1311003401 active site 1311003402 phosphorylation site [posttranslational modification] 1311003403 intermolecular recognition site; other site 1311003404 dimerization interface [polypeptide binding]; other site 1311003405 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 1311003406 DNA binding site [nucleotide binding] 1311003407 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1311003408 synthetase active site [active] 1311003409 NTP binding site [chemical binding]; other site 1311003410 metal binding site [ion binding]; metal-binding site 1311003411 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1311003412 MarR family; Region: MarR_2; pfam12802 1311003413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1311003414 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311003415 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1311003416 Walker A/P-loop; other site 1311003417 ATP binding site [chemical binding]; other site 1311003418 Q-loop/lid; other site 1311003419 ABC transporter signature motif; other site 1311003420 Walker B; other site 1311003421 D-loop; other site 1311003422 H-loop/switch region; other site 1311003423 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1311003424 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311003425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311003426 Walker A/P-loop; other site 1311003427 ATP binding site [chemical binding]; other site 1311003428 Q-loop/lid; other site 1311003429 ABC transporter signature motif; other site 1311003430 Walker B; other site 1311003431 D-loop; other site 1311003432 H-loop/switch region; other site 1311003433 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1311003434 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311003435 Walker A/P-loop; other site 1311003436 ATP binding site [chemical binding]; other site 1311003437 Q-loop/lid; other site 1311003438 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311003439 ABC transporter; Region: ABC_tran_2; pfam12848 1311003440 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311003441 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1311003442 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1311003443 active site 1311003444 NTP binding site [chemical binding]; other site 1311003445 metal binding triad [ion binding]; metal-binding site 1311003446 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1311003447 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1311003448 EDD domain protein, DegV family; Region: DegV; TIGR00762 1311003449 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1311003450 Protein of unknown function (DUF1149); Region: DUF1149; pfam06619 1311003451 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 1311003452 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1311003453 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 1311003454 putative substrate binding site [chemical binding]; other site 1311003455 putative ATP binding site [chemical binding]; other site 1311003456 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311003457 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1311003458 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311003459 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 1311003460 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1311003461 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1311003462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311003463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311003464 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1311003465 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1311003466 RimM N-terminal domain; Region: RimM; pfam01782 1311003467 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1311003468 KH domain; Region: KH_4; pfam13083 1311003469 G-X-X-G motif; other site 1311003470 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1311003471 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1311003472 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1311003473 FtsX-like permease family; Region: FtsX; pfam02687 1311003474 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311003475 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1311003476 Walker A/P-loop; other site 1311003477 ATP binding site [chemical binding]; other site 1311003478 Q-loop/lid; other site 1311003479 ABC transporter signature motif; other site 1311003480 Walker B; other site 1311003481 D-loop; other site 1311003482 H-loop/switch region; other site 1311003483 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311003484 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1311003485 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12838 1311003486 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1311003487 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1311003488 catalytic site [active] 1311003489 subunit interface [polypeptide binding]; other site 1311003490 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1311003491 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311003492 active site 1311003493 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311003494 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 1311003495 RNA binding surface [nucleotide binding]; other site 1311003496 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311003497 active site 1311003498 lipoprotein signal peptidase; Provisional; Region: PRK14797 1311003499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311003500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311003501 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 1311003502 dimerization interface [polypeptide binding]; other site 1311003503 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1311003504 Protein of unknown function (DUF464); Region: DUF464; pfam04327 1311003505 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1311003506 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1311003507 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1311003508 putative active site [active] 1311003509 putative metal binding site [ion binding]; other site 1311003510 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1311003511 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1311003512 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 1311003513 Ligand Binding Site [chemical binding]; other site 1311003514 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1311003515 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1311003516 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311003517 catalytic residue [active] 1311003518 glutathione reductase; Validated; Region: PRK06116 1311003519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311003520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311003521 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1311003522 hypothetical protein; Provisional; Region: PRK13676 1311003523 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1311003524 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1311003525 Tetramer interface [polypeptide binding]; other site 1311003526 active site 1311003527 FMN-binding site [chemical binding]; other site 1311003528 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1311003529 active site 1311003530 dimer interface [polypeptide binding]; other site 1311003531 metal binding site [ion binding]; metal-binding site 1311003532 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1311003533 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1311003534 active site 1311003535 catalytic residue [active] 1311003536 dimer interface [polypeptide binding]; other site 1311003537 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1311003538 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1311003539 putative RNA binding site [nucleotide binding]; other site 1311003540 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1311003541 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1311003542 Sulfatase; Region: Sulfatase; pfam00884 1311003543 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1311003544 23S rRNA binding site [nucleotide binding]; other site 1311003545 L21 binding site [polypeptide binding]; other site 1311003546 L13 binding site [polypeptide binding]; other site 1311003547 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1311003548 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1311003549 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1311003550 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1311003551 cytidylate kinase; Provisional; Region: cmk; PRK00023 1311003552 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 1311003553 CMP-binding site; other site 1311003554 The sites determining sugar specificity; other site 1311003555 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1311003556 peptidase T; Region: peptidase-T; TIGR01882 1311003557 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1311003558 metal binding site [ion binding]; metal-binding site 1311003559 dimer interface [polypeptide binding]; other site 1311003560 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1311003561 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 1311003562 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1311003563 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311003564 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311003565 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311003566 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1311003567 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1311003568 Walker A/P-loop; other site 1311003569 ATP binding site [chemical binding]; other site 1311003570 Q-loop/lid; other site 1311003571 ABC transporter signature motif; other site 1311003572 Walker B; other site 1311003573 D-loop; other site 1311003574 H-loop/switch region; other site 1311003575 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1311003576 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1311003577 intersubunit interface [polypeptide binding]; other site 1311003578 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1311003579 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1311003580 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1311003581 DHH family; Region: DHH; pfam01368 1311003582 DHHA2 domain; Region: DHHA2; pfam02833 1311003583 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1311003584 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 1311003585 FeS/SAM binding site; other site 1311003586 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1311003587 Domain of unknown function DUF21; Region: DUF21; pfam01595 1311003588 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 1311003589 Transporter associated domain; Region: CorC_HlyC; smart01091 1311003590 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 1311003591 S-adenosylmethionine binding site [chemical binding]; other site 1311003592 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1311003593 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 1311003594 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1311003595 active site 1311003596 Predicted membrane protein [Function unknown]; Region: COG3601 1311003597 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1311003598 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 1311003599 Listeria/Bacterioides repeat; Region: List_Bact_rpt; TIGR02543 1311003600 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; cd00004 1311003601 active site 1311003602 catalytic site [active] 1311003603 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1311003604 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 1311003605 Catalytic site [active] 1311003606 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1311003607 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 1311003608 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 1311003609 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 1311003610 active site 1311003611 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1311003612 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 1311003613 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 1311003614 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311003615 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 1311003616 active site 1311003617 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1311003618 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1311003619 Probable Catalytic site; other site 1311003620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1311003621 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1311003622 NAD(P) binding site [chemical binding]; other site 1311003623 active site 1311003624 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1311003625 substrate binding site; other site 1311003626 dimer interface; other site 1311003627 LicD family; Region: LicD; cl01378 1311003628 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1311003629 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1311003630 Ligand binding site; other site 1311003631 Putative Catalytic site; other site 1311003632 DXD motif; other site 1311003633 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1311003634 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1311003635 Probable Catalytic site; other site 1311003636 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 1311003637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1311003638 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1311003639 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1311003640 NADP binding site [chemical binding]; other site 1311003641 active site 1311003642 putative substrate binding site [chemical binding]; other site 1311003643 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1311003644 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1311003645 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1311003646 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1311003647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1311003648 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1311003649 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 1311003650 DNA binding residues [nucleotide binding] 1311003651 DNA primase; Validated; Region: dnaG; PRK05667 1311003652 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1311003653 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1311003654 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 1311003655 active site 1311003656 metal binding site [ion binding]; metal-binding site 1311003657 interdomain interaction site; other site 1311003658 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1311003659 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1311003660 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1311003661 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1311003662 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1311003663 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 1311003664 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311003665 substrate binding pocket [chemical binding]; other site 1311003666 membrane-bound complex binding site; other site 1311003667 hinge residues; other site 1311003668 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1311003669 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1311003670 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1311003671 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1311003672 active site residue [active] 1311003673 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1311003674 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 1311003675 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1311003676 4-alpha-glucanotransferase; Provisional; Region: PRK14508 1311003677 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311003678 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311003679 DNA binding site [nucleotide binding] 1311003680 domain linker motif; other site 1311003681 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 1311003682 putative dimerization interface [polypeptide binding]; other site 1311003683 putative ligand binding site [chemical binding]; other site 1311003684 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1311003685 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1311003686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1311003687 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 1311003688 dimer interface [polypeptide binding]; other site 1311003689 conserved gate region; other site 1311003690 putative PBP binding loops; other site 1311003691 ABC-ATPase subunit interface; other site 1311003692 HTH-like domain; Region: HTH_21; pfam13276 1311003693 Integrase core domain; Region: rve; pfam00665 1311003694 Integrase core domain; Region: rve_3; cl15866 1311003695 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 1311003696 putative active site [active] 1311003697 nucleotide binding site [chemical binding]; other site 1311003698 nudix motif; other site 1311003699 putative metal binding site [ion binding]; other site 1311003700 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 1311003701 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 1311003702 ATP binding site [chemical binding]; other site 1311003703 putative Mg++ binding site [ion binding]; other site 1311003704 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1311003705 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 1311003706 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 1311003707 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 1311003708 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 1311003709 glycosyltransferase, SP_1767 family; Region: glyco_access_1; TIGR03728 1311003710 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1311003711 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1311003712 Ligand binding site; other site 1311003713 metal-binding site 1311003714 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1311003715 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1311003716 Ligand binding site; other site 1311003717 metal-binding site 1311003718 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1311003719 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 1311003720 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1311003721 serine-rich repeat adhesion glycoprotein AST domain; Region: ser_adhes_Nterm; TIGR04224 1311003722 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 1311003723 excinuclease ABC subunit B; Provisional; Region: PRK05298 1311003724 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 1311003725 ATP binding site [chemical binding]; other site 1311003726 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 1311003727 nucleotide binding region [chemical binding]; other site 1311003728 ATP-binding site [chemical binding]; other site 1311003729 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1311003730 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311003731 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 1311003732 substrate binding pocket [chemical binding]; other site 1311003733 membrane-bound complex binding site; other site 1311003734 hinge residues; other site 1311003735 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311003736 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 1311003737 substrate binding pocket [chemical binding]; other site 1311003738 membrane-bound complex binding site; other site 1311003739 hinge residues; other site 1311003740 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 1311003741 dimer interface [polypeptide binding]; other site 1311003742 conserved gate region; other site 1311003743 putative PBP binding loops; other site 1311003744 ABC-ATPase subunit interface; other site 1311003745 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311003746 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1311003747 Walker A/P-loop; other site 1311003748 ATP binding site [chemical binding]; other site 1311003749 Q-loop/lid; other site 1311003750 ABC transporter signature motif; other site 1311003751 Walker B; other site 1311003752 D-loop; other site 1311003753 H-loop/switch region; other site 1311003754 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1311003755 GTP1/OBG; Region: GTP1_OBG; pfam01018 1311003756 Obg GTPase; Region: Obg; cd01898 1311003757 G1 box; other site 1311003758 GTP/Mg2+ binding site [chemical binding]; other site 1311003759 Switch I region; other site 1311003760 G2 box; other site 1311003761 G3 box; other site 1311003762 Switch II region; other site 1311003763 G4 box; other site 1311003764 G5 box; other site 1311003765 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1311003766 amidase; Provisional; Region: PRK06529 1311003767 Amidase; Region: Amidase; cl11426 1311003768 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1311003769 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 1311003770 RNA binding surface [nucleotide binding]; other site 1311003771 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1311003772 active site 1311003773 uracil binding [chemical binding]; other site 1311003774 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 1311003775 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1311003776 active site 1311003777 catalytic tetrad [active] 1311003778 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 1311003779 dimer interface [polypeptide binding]; other site 1311003780 FMN binding site [chemical binding]; other site 1311003781 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1311003782 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311003783 dimer interface [polypeptide binding]; other site 1311003784 active site 1311003785 metal binding site [ion binding]; metal-binding site 1311003786 glutathione binding site [chemical binding]; other site 1311003787 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1311003788 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1311003789 Ligand binding site; other site 1311003790 Putative Catalytic site; other site 1311003791 DXD motif; other site 1311003792 Amino acid permease; Region: AA_permease_2; pfam13520 1311003793 Spore germination protein; Region: Spore_permease; cl17796 1311003794 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 1311003795 SmpB-tmRNA interface; other site 1311003796 ribonuclease R; Region: RNase_R; TIGR02063 1311003797 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1311003798 RNB domain; Region: RNB; pfam00773 1311003799 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1311003800 RNA binding site [nucleotide binding]; other site 1311003801 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1311003802 drug efflux system protein MdtG; Provisional; Region: PRK09874 1311003803 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 1311003804 putative substrate translocation pore; other site 1311003805 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1311003806 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1311003807 Walker A/P-loop; other site 1311003808 ATP binding site [chemical binding]; other site 1311003809 Q-loop/lid; other site 1311003810 ABC transporter signature motif; other site 1311003811 Walker B; other site 1311003812 D-loop; other site 1311003813 H-loop/switch region; other site 1311003814 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1311003815 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 1311003816 CoA-binding site [chemical binding]; other site 1311003817 ATP-binding [chemical binding]; other site 1311003818 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1311003819 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1311003820 DNA binding site [nucleotide binding] 1311003821 catalytic residue [active] 1311003822 H2TH interface [polypeptide binding]; other site 1311003823 putative catalytic residues [active] 1311003824 turnover-facilitating residue; other site 1311003825 intercalation triad [nucleotide binding]; other site 1311003826 8OG recognition residue [nucleotide binding]; other site 1311003827 putative reading head residues; other site 1311003828 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1311003829 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1311003830 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 1311003831 sequence-specific DNA binding site [nucleotide binding]; other site 1311003832 salt bridge; other site 1311003833 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1311003834 Transglutaminase/protease-like homologues; Region: TGc; smart00460 1311003835 GTPase Era; Reviewed; Region: era; PRK00089 1311003836 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1311003837 G1 box; other site 1311003838 GTP/Mg2+ binding site [chemical binding]; other site 1311003839 Switch I region; other site 1311003840 G2 box; other site 1311003841 Switch II region; other site 1311003842 G3 box; other site 1311003843 G4 box; other site 1311003844 G5 box; other site 1311003845 KH domain; Region: KH_2; pfam07650 1311003846 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1311003847 metal-binding heat shock protein; Provisional; Region: PRK00016 1311003848 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1311003849 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1311003850 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 1311003851 nudix motif; other site 1311003852 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1311003853 PhoH-like protein; Region: PhoH; pfam02562 1311003854 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1311003855 hypothetical protein; Provisional; Region: PRK13672 1311003856 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1311003857 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1311003858 S1 domain; Region: S1_2; pfam13509 1311003859 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1311003860 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1311003861 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1311003862 hinge region; other site 1311003863 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 1311003864 putative nucleotide binding site [chemical binding]; other site 1311003865 uridine monophosphate binding site [chemical binding]; other site 1311003866 homohexameric interface [polypeptide binding]; other site 1311003867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311003868 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1311003869 Walker A/P-loop; other site 1311003870 ATP binding site [chemical binding]; other site 1311003871 Q-loop/lid; other site 1311003872 ABC transporter signature motif; other site 1311003873 Walker B; other site 1311003874 D-loop; other site 1311003875 H-loop/switch region; other site 1311003876 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1311003877 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1311003878 Walker A/P-loop; other site 1311003879 ATP binding site [chemical binding]; other site 1311003880 Q-loop/lid; other site 1311003881 ABC transporter signature motif; other site 1311003882 Walker B; other site 1311003883 D-loop; other site 1311003884 H-loop/switch region; other site 1311003885 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1311003886 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1311003887 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 1311003888 dimer interface [polypeptide binding]; other site 1311003889 conserved gate region; other site 1311003890 putative PBP binding loops; other site 1311003891 ABC-ATPase subunit interface; other site 1311003892 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1311003893 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1311003894 substrate binding site [chemical binding]; other site 1311003895 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 1311003896 mRNA/rRNA interface [nucleotide binding]; other site 1311003897 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1311003898 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 1311003899 23S rRNA interface [nucleotide binding]; other site 1311003900 L7/L12 interface [polypeptide binding]; other site 1311003901 putative thiostrepton binding site; other site 1311003902 L25 interface [polypeptide binding]; other site 1311003903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311003904 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 1311003905 putative substrate translocation pore; other site 1311003906 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1311003907 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 1311003908 metal binding site [ion binding]; metal-binding site 1311003909 dimer interface [polypeptide binding]; other site 1311003910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1311003911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1311003912 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 1311003913 dimerization interface [polypeptide binding]; other site 1311003914 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1311003915 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1311003916 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1311003917 substrate-cofactor binding pocket; other site 1311003918 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1311003919 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1311003920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311003921 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1311003922 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1311003923 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1311003924 Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]; Region: PpiB; COG0652 1311003925 active site 1311003926 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1311003927 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 1311003928 ABC-ATPase subunit interface; other site 1311003929 dimer interface [polypeptide binding]; other site 1311003930 putative PBP binding regions; other site 1311003931 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1311003932 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1311003933 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1311003934 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 1311003935 metal binding site [ion binding]; metal-binding site 1311003936 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1311003937 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1311003938 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1311003939 FeoA domain; Region: FeoA; pfam04023 1311003940 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1311003941 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1311003942 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 1311003943 dimer interface [polypeptide binding]; other site 1311003944 ADP-ribose binding site [chemical binding]; other site 1311003945 active site 1311003946 nudix motif; other site 1311003947 metal binding site [ion binding]; metal-binding site 1311003948 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1311003949 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1311003950 Substrate binding site; other site 1311003951 Mg++ binding site; other site 1311003952 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 1311003953 active site 1311003954 substrate binding site [chemical binding]; other site 1311003955 CoA binding site [chemical binding]; other site 1311003956 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1311003957 dimer interface [polypeptide binding]; other site 1311003958 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1311003959 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_16; cd07263 1311003960 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1311003961 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311003962 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1311003963 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 1311003964 classical (c) SDRs; Region: SDR_c; cd05233 1311003965 NAD(P) binding site [chemical binding]; other site 1311003966 active site 1311003967 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1311003968 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 1311003969 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311003970 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1311003971 Coenzyme A binding pocket [chemical binding]; other site 1311003972 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 1311003973 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1311003974 DXD motif; other site 1311003975 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 1311003976 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1311003977 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1311003978 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1311003979 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1311003980 active site 1311003981 HIGH motif; other site 1311003982 KMSKS motif; other site 1311003983 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1311003984 tRNA binding surface [nucleotide binding]; other site 1311003985 anticodon binding site; other site 1311003986 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 1311003987 dimer interface [polypeptide binding]; other site 1311003988 putative tRNA-binding site [nucleotide binding]; other site 1311003989 tellurite resistance protein TehB; Provisional; Region: PRK12335 1311003990 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 1311003991 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 1311003992 S-adenosylmethionine binding site [chemical binding]; other site 1311003993 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1311003994 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1311003995 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 1311003996 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1311003997 active site 1311003998 putative catalytic site [active] 1311003999 DNA binding site [nucleotide binding] 1311004000 putative phosphate binding site [ion binding]; other site 1311004001 metal binding site A [ion binding]; metal-binding site 1311004002 AP binding site [nucleotide binding]; other site 1311004003 metal binding site B [ion binding]; metal-binding site 1311004004 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 1311004005 ArsC family; Region: ArsC; pfam03960 1311004006 putative ArsC-like catalytic residues; other site 1311004007 putative TRX-like catalytic residues [active] 1311004008 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1311004009 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1311004010 DNA binding site [nucleotide binding] 1311004011 active site 1311004012 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 1311004013 putative ligand binding site [chemical binding]; other site 1311004014 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1311004015 putative NAD binding site [chemical binding]; other site 1311004016 putative catalytic site [active] 1311004017 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1311004018 L-serine binding site [chemical binding]; other site 1311004019 ACT domain interface; other site 1311004020 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1311004021 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311004022 catalytic residue [active] 1311004023 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 1311004024 Predicted methyltransferases [General function prediction only]; Region: COG0313 1311004025 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1311004026 putative SAM binding site [chemical binding]; other site 1311004027 putative homodimer interface [polypeptide binding]; other site 1311004028 DNA replication intiation control protein YabA; Reviewed; Region: PRK13169 1311004029 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1311004030 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1311004031 thymidylate kinase; Validated; Region: tmk; PRK00698 1311004032 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 1311004033 TMP-binding site; other site 1311004034 ATP-binding site [chemical binding]; other site 1311004035 FOG: CBS domain [General function prediction only]; Region: COG0517 1311004036 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 1311004037 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311004038 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1311004039 TM-ABC transporter signature motif; other site 1311004040 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1311004041 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 1311004042 putative ligand binding site [chemical binding]; other site 1311004043 hypothetical protein; Provisional; Region: PRK02302 1311004044 Clp protease; Region: CLP_protease; pfam00574 1311004045 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1311004046 oligomer interface [polypeptide binding]; other site 1311004047 active site residues [active] 1311004048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311004049 active site 1311004050 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1311004051 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 1311004052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311004053 homodimer interface [polypeptide binding]; other site 1311004054 catalytic residue [active] 1311004055 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1311004056 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1311004057 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1311004058 TrkA-N domain; Region: TrkA_N; pfam02254 1311004059 TrkA-C domain; Region: TrkA_C; pfam02080 1311004060 TrkA-N domain; Region: TrkA_N; pfam02254 1311004061 TrkA-C domain; Region: TrkA_C; pfam02080 1311004062 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1311004063 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1311004064 putative transposase OrfB; Reviewed; Region: PHA02517 1311004065 HTH-like domain; Region: HTH_21; pfam13276 1311004066 Integrase core domain; Region: rve; pfam00665 1311004067 Integrase core domain; Region: rve_3; cl15866 1311004068 hypothetical protein; Validated; Region: PRK00041 1311004069 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1311004070 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 1311004071 RNA binding surface [nucleotide binding]; other site 1311004072 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1311004073 active site 1311004074 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 1311004075 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 1311004076 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1311004077 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 1311004078 FOG: CBS domain [General function prediction only]; Region: COG0517 1311004079 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 1311004080 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1311004081 active site 1311004082 metal binding site [ion binding]; metal-binding site 1311004083 homotetramer interface [polypeptide binding]; other site 1311004084 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1311004085 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 1311004086 active site 1311004087 dimerization interface [polypeptide binding]; other site 1311004088 glutamate racemase; Provisional; Region: PRK00865 1311004089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3763 1311004090 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1311004091 HTH domain; Region: HTH_11; pfam08279 1311004092 3H domain; Region: 3H; pfam02829 1311004093 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1311004094 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1311004095 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1311004096 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1311004097 substrate binding site [chemical binding]; other site 1311004098 activation loop (A-loop); other site 1311004099 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1311004100 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1311004101 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1311004102 acylphosphatase; Provisional; Region: PRK14434 1311004103 OxaA-like protein precursor; Provisional; Region: PRK02463 1311004104 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1311004105 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1311004106 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 1311004107 dimer interface [polypeptide binding]; other site 1311004108 conserved gate region; other site 1311004109 putative PBP binding loops; other site 1311004110 ABC-ATPase subunit interface; other site 1311004111 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 1311004112 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311004113 substrate binding pocket [chemical binding]; other site 1311004114 membrane-bound complex binding site; other site 1311004115 hinge residues; other site 1311004116 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1311004117 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1311004118 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1311004119 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1311004120 Domain of unknown function (DUF4200); Region: DUF4200; pfam13863 1311004121 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1311004122 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1311004123 dimerization interface [polypeptide binding]; other site 1311004124 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1311004125 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311004126 Coenzyme A binding pocket [chemical binding]; other site 1311004127 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1311004128 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1311004129 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1311004130 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1311004131 SWIM zinc finger; Region: SWIM; pfam04434 1311004132 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1311004133 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1311004134 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 1311004135 ATP binding site [chemical binding]; other site 1311004136 putative Mg++ binding site [ion binding]; other site 1311004137 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 1311004138 nucleotide binding region [chemical binding]; other site 1311004139 ATP-binding site [chemical binding]; other site 1311004140 GTP-binding protein Der; Reviewed; Region: PRK00093 1311004141 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1311004142 G1 box; other site 1311004143 GTP/Mg2+ binding site [chemical binding]; other site 1311004144 Switch I region; other site 1311004145 G2 box; other site 1311004146 Switch II region; other site 1311004147 G3 box; other site 1311004148 G4 box; other site 1311004149 G5 box; other site 1311004150 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1311004151 G1 box; other site 1311004152 GTP/Mg2+ binding site [chemical binding]; other site 1311004153 Switch I region; other site 1311004154 G2 box; other site 1311004155 G3 box; other site 1311004156 Switch II region; other site 1311004157 G4 box; other site 1311004158 G5 box; other site 1311004159 primosomal protein DnaI; Reviewed; Region: PRK08939 1311004160 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1311004161 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 1311004162 Walker A motif; other site 1311004163 ATP binding site [chemical binding]; other site 1311004164 Walker B motif; other site 1311004165 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1311004166 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1311004167 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1311004168 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 1311004169 ATP cone domain; Region: ATP-cone; pfam03477 1311004170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311004171 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 1311004172 dimerization interface [polypeptide binding]; other site 1311004173 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 1311004174 dimer interface [polypeptide binding]; other site 1311004175 phosphorylation site [posttranslational modification] 1311004176 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 1311004177 ATP binding site [chemical binding]; other site 1311004178 Mg2+ binding site [ion binding]; other site 1311004179 G-X-G motif; other site 1311004180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311004181 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 1311004182 active site 1311004183 phosphorylation site [posttranslational modification] 1311004184 intermolecular recognition site; other site 1311004185 dimerization interface [polypeptide binding]; other site 1311004186 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 1311004187 DNA binding site [nucleotide binding] 1311004188 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1311004189 heat shock protein HtpX; Provisional; Region: PRK04897 1311004190 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1311004191 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1311004192 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 1311004193 S-adenosylmethionine binding site [chemical binding]; other site 1311004194 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1311004195 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1311004196 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1311004197 TrkA-N domain; Region: TrkA_N; pfam02254 1311004198 TrkA-C domain; Region: TrkA_C; pfam02080 1311004199 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1311004200 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1311004201 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311004202 Walker A/P-loop; other site 1311004203 ATP binding site [chemical binding]; other site 1311004204 Q-loop/lid; other site 1311004205 ABC transporter signature motif; other site 1311004206 Walker B; other site 1311004207 D-loop; other site 1311004208 H-loop/switch region; other site 1311004209 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1311004210 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1311004211 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311004212 Walker A/P-loop; other site 1311004213 ATP binding site [chemical binding]; other site 1311004214 Q-loop/lid; other site 1311004215 ABC transporter signature motif; other site 1311004216 Walker B; other site 1311004217 D-loop; other site 1311004218 H-loop/switch region; other site 1311004219 hypothetical protein; Provisional; Region: PRK13661 1311004220 serine/threonine transporter SstT; Provisional; Region: PRK13628 1311004221 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1311004222 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1311004223 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1311004224 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1311004225 catalytic Zn binding site [ion binding]; other site 1311004226 structural Zn binding site [ion binding]; other site 1311004227 NAD(P) binding site [chemical binding]; other site 1311004228 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1311004229 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1311004230 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1311004231 Walker A/P-loop; other site 1311004232 ATP binding site [chemical binding]; other site 1311004233 Q-loop/lid; other site 1311004234 ABC transporter signature motif; other site 1311004235 Walker B; other site 1311004236 D-loop; other site 1311004237 H-loop/switch region; other site 1311004238 NIL domain; Region: NIL; pfam09383 1311004239 hypothetical protein; Provisional; Region: PRK06446 1311004240 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1311004241 metal binding site [ion binding]; metal-binding site 1311004242 dimer interface [polypeptide binding]; other site 1311004243 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1311004244 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1311004245 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 1311004246 substrate binding pocket [chemical binding]; other site 1311004247 membrane-bound complex binding site; other site 1311004248 hinge residues; other site 1311004249 Peptidase C26; Region: Peptidase_C26; pfam07722 1311004250 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1311004251 catalytic triad [active] 1311004252 hypothetical protein; Provisional; Region: PRK12378 1311004253 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 1311004254 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 1311004255 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1311004256 amphipathic channel; other site 1311004257 Asn-Pro-Ala signature motifs; other site 1311004258 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1311004259 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1311004260 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1311004261 DNA binding residues [nucleotide binding] 1311004262 dimer interface [polypeptide binding]; other site 1311004263 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1311004264 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 1311004265 hypothetical protein; Provisional; Region: PRK13670 1311004266 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 1311004267 S-adenosylmethionine binding site [chemical binding]; other site 1311004268 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1311004269 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1311004270 catalytic triad [active] 1311004271 conserved cis-peptide bond; other site 1311004272 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311004273 Zn2+ binding site [ion binding]; other site 1311004274 Mg2+ binding site [ion binding]; other site 1311004275 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1311004276 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1311004277 active site 1311004278 (T/H)XGH motif; other site 1311004279 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1311004280 GTPase YqeH; Provisional; Region: PRK13796 1311004281 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1311004282 GTP/Mg2+ binding site [chemical binding]; other site 1311004283 G4 box; other site 1311004284 G5 box; other site 1311004285 G1 box; other site 1311004286 Switch I region; other site 1311004287 G2 box; other site 1311004288 G3 box; other site 1311004289 Switch II region; other site 1311004290 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1311004291 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 1311004292 active site 1311004293 motif I; other site 1311004294 motif II; other site 1311004295 EamA-like transporter family; Region: EamA; pfam00892 1311004296 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1311004297 EamA-like transporter family; Region: EamA; pfam00892 1311004298 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1311004299 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1311004300 GatB domain; Region: GatB_Yqey; pfam02637 1311004301 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1311004302 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1311004303 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1311004304 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1311004305 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1311004306 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1311004307 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1311004308 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1311004309 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1311004310 HTH domain; Region: HTH_11; pfam08279 1311004311 FOG: CBS domain [General function prediction only]; Region: COG0517 1311004312 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_4; cd04617 1311004313 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 1311004314 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1311004315 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1311004316 Isochorismatase family; Region: Isochorismatase; pfam00857 1311004317 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 1311004318 catalytic triad [active] 1311004319 conserved cis-peptide bond; other site 1311004320 transcriptional repressor CodY; Validated; Region: PRK04158 1311004321 CodY GAF-like domain; Region: CodY; pfam06018 1311004322 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 1311004323 dimerization interface [polypeptide binding]; other site 1311004324 putative Zn2+ binding site [ion binding]; other site 1311004325 putative DNA binding site [nucleotide binding]; other site 1311004326 aminotransferase AlaT; Validated; Region: PRK09265 1311004327 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 1311004328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1311004329 homodimer interface [polypeptide binding]; other site 1311004330 catalytic residue [active] 1311004331 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 1311004332 Ligand Binding Site [chemical binding]; other site 1311004333 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 1311004334 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311004335 active site 1311004336 motif I; other site 1311004337 motif II; other site 1311004338 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 1311004339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4696 1311004340 metal binding site [ion binding]; metal-binding site 1311004341 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1311004342 active site 1311004343 homotetramer interface [polypeptide binding]; other site 1311004344 homodimer interface [polypeptide binding]; other site 1311004345 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1311004346 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1311004347 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1311004348 shikimate binding site; other site 1311004349 NAD(P) binding site [chemical binding]; other site 1311004350 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 1311004351 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1311004352 active site 1311004353 catalytic tetrad [active] 1311004354 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1311004355 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 1311004356 generic binding surface II; other site 1311004357 ssDNA binding site; other site 1311004358 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 1311004359 ATP binding site [chemical binding]; other site 1311004360 putative Mg++ binding site [ion binding]; other site 1311004361 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 1311004362 nucleotide binding region [chemical binding]; other site 1311004363 ATP-binding site [chemical binding]; other site 1311004364 Surface antigen [General function prediction only]; Region: COG3942 1311004365 CHAP domain; Region: CHAP; pfam05257 1311004366 alanine racemase; Reviewed; Region: alr; PRK00053 1311004367 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1311004368 active site 1311004369 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1311004370 dimer interface [polypeptide binding]; other site 1311004371 substrate binding site [chemical binding]; other site 1311004372 catalytic residues [active] 1311004373 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1311004374 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1311004375 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1311004376 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1311004377 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1311004378 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 1311004379 nucleotide binding region [chemical binding]; other site 1311004380 ATP-binding site [chemical binding]; other site 1311004381 SEC-C motif; Region: SEC-C; pfam02810 1311004382 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1311004383 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1311004384 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1311004385 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1311004386 nucleotide binding site [chemical binding]; other site 1311004387 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1311004388 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 1311004389 active site turn [active] 1311004390 phosphorylation site [posttranslational modification] 1311004391 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1311004392 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 1311004393 HPr interaction site; other site 1311004394 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1311004395 active site 1311004396 phosphorylation site [posttranslational modification] 1311004397 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1311004398 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1311004399 substrate binding [chemical binding]; other site 1311004400 active site 1311004401 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1311004402 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311004403 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311004404 DNA binding site [nucleotide binding] 1311004405 domain linker motif; other site 1311004406 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 1311004407 dimerization interface [polypeptide binding]; other site 1311004408 ligand binding site [chemical binding]; other site 1311004409 sodium binding site [ion binding]; other site 1311004410 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1311004411 putative RNA binding site [nucleotide binding]; other site 1311004412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1302 1311004413 elongation factor P; Validated; Region: PRK00529 1311004414 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1311004415 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 1311004416 RNA binding site [nucleotide binding]; other site 1311004417 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 1311004418 RNA binding site [nucleotide binding]; other site 1311004419 Domain of unknown function (DUF4176); Region: DUF4176; pfam13780 1311004420 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 1311004421 catalytic motif [active] 1311004422 Zn binding site [ion binding]; other site 1311004423 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1311004424 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1311004425 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 1311004426 active site 1311004427 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1311004428 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1311004429 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1311004430 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1311004431 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1311004432 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1311004433 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 1311004434 Cl binding site [ion binding]; other site 1311004435 oligomer interface [polypeptide binding]; other site 1311004436 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1311004437 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1311004438 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 1311004439 dimer interface [polypeptide binding]; other site 1311004440 ssDNA binding site [nucleotide binding]; other site 1311004441 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1311004442 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1311004443 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1311004444 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1311004445 minor groove reading motif; other site 1311004446 helix-hairpin-helix signature motif; other site 1311004447 substrate binding pocket [chemical binding]; other site 1311004448 active site 1311004449 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 1311004450 DNA binding and oxoG recognition site [nucleotide binding] 1311004451 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 1311004452 non-specific DNA binding site [nucleotide binding]; other site 1311004453 salt bridge; other site 1311004454 sequence-specific DNA binding site [nucleotide binding]; other site 1311004455 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 1311004456 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1311004457 catalytic residues [active] 1311004458 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1311004459 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 1311004460 active site 1311004461 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: COG1193 1311004462 MutS domain III; Region: MutS_III; pfam05192 1311004463 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 1311004464 Walker A/P-loop; other site 1311004465 ATP binding site [chemical binding]; other site 1311004466 Q-loop/lid; other site 1311004467 ABC transporter signature motif; other site 1311004468 Walker B; other site 1311004469 D-loop; other site 1311004470 H-loop/switch region; other site 1311004471 Smr domain; Region: Smr; pfam01713 1311004472 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1311004473 Colicin V production protein; Region: Colicin_V; pfam02674 1311004474 ribonuclease HIII; Provisional; Region: PRK00996 1311004475 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1311004476 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1311004477 RNA/DNA hybrid binding site [nucleotide binding]; other site 1311004478 active site 1311004479 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1311004480 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 1311004481 Catalytic site [active] 1311004482 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1311004483 AAA domain; Region: AAA_30; pfam13604 1311004484 Family description; Region: UvrD_C_2; pfam13538 1311004485 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1311004486 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1311004487 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1311004488 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1311004489 Beta-lactamase; Region: Beta-lactamase; pfam00144 1311004490 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1311004491 active site 1311004492 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 1311004493 amphipathic channel; other site 1311004494 Asn-Pro-Ala signature motifs; other site 1311004495 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 1311004496 Ligand Binding Site [chemical binding]; other site 1311004497 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 1311004498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311004499 putative substrate translocation pore; other site 1311004500 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1311004501 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1311004502 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1311004503 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; pfam09168 1311004504 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1311004505 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1311004506 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1311004507 substrate binding pocket [chemical binding]; other site 1311004508 chain length determination region; other site 1311004509 substrate-Mg2+ binding site; other site 1311004510 catalytic residues [active] 1311004511 aspartate-rich region 1; other site 1311004512 active site lid residues [active] 1311004513 aspartate-rich region 2; other site 1311004514 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1311004515 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1311004516 Walker A/P-loop; other site 1311004517 ATP binding site [chemical binding]; other site 1311004518 Q-loop/lid; other site 1311004519 ABC transporter signature motif; other site 1311004520 Walker B; other site 1311004521 D-loop; other site 1311004522 H-loop/switch region; other site 1311004523 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 1311004524 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311004525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311004526 Walker A/P-loop; other site 1311004527 ATP binding site [chemical binding]; other site 1311004528 Q-loop/lid; other site 1311004529 ABC transporter signature motif; other site 1311004530 Walker B; other site 1311004531 D-loop; other site 1311004532 H-loop/switch region; other site 1311004533 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1311004534 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1311004535 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1311004536 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1311004537 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1311004538 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311004539 AAA domain; Region: AAA_21; pfam13304 1311004540 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311004541 Walker B; other site 1311004542 D-loop; other site 1311004543 H-loop/switch region; other site 1311004544 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1311004545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1311004546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1311004547 hypothetical protein; Validated; Region: PRK00153 1311004548 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1311004549 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1311004550 DNA binding residues [nucleotide binding] 1311004551 dimer interface [polypeptide binding]; other site 1311004552 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1311004553 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1311004554 active site 1311004555 catalytic site [active] 1311004556 substrate binding site [chemical binding]; other site 1311004557 HI0933-like protein; Region: HI0933_like; pfam03486 1311004558 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 1311004559 nucleotide binding site/active site [active] 1311004560 HIT family signature motif; other site 1311004561 catalytic residue [active] 1311004562 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1311004563 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1311004564 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 1311004565 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1311004566 catalytic residue [active] 1311004567 UGMP family protein; Validated; Region: PRK09604 1311004568 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1311004569 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1311004570 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1311004571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311004572 Coenzyme A binding pocket [chemical binding]; other site 1311004573 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1311004574 Glycoprotease family; Region: Peptidase_M22; pfam00814 1311004575 hypothetical protein; Provisional; Region: PRK13667 1311004576 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1311004577 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1311004578 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1311004579 CHAP domain; Region: CHAP; cl17642 1311004580 Surface antigen [General function prediction only]; Region: COG3942 1311004581 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1311004582 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1311004583 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1311004584 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1311004585 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1311004586 DNA binding residues [nucleotide binding] 1311004587 putative dimer interface [polypeptide binding]; other site 1311004588 Predicted membrane protein [Function unknown]; Region: COG4129 1311004589 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1311004590 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1311004591 Phosphoglycerate kinase; Region: PGK; pfam00162 1311004592 substrate binding site [chemical binding]; other site 1311004593 hinge regions; other site 1311004594 ADP binding site [chemical binding]; other site 1311004595 catalytic site [active] 1311004596 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 1311004597 active site 1311004598 motif I; other site 1311004599 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1311004600 motif II; other site 1311004601 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1311004602 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1311004603 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1311004604 elongation factor G; Reviewed; Region: PRK00007 1311004605 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1311004606 G1 box; other site 1311004607 putative GEF interaction site [polypeptide binding]; other site 1311004608 GTP/Mg2+ binding site [chemical binding]; other site 1311004609 Switch I region; other site 1311004610 G2 box; other site 1311004611 G3 box; other site 1311004612 Switch II region; other site 1311004613 G4 box; other site 1311004614 G5 box; other site 1311004615 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 1311004616 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 1311004617 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 1311004618 30S ribosomal protein S7; Validated; Region: PRK05302 1311004619 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 1311004620 S17 interaction site [polypeptide binding]; other site 1311004621 S8 interaction site; other site 1311004622 16S rRNA interaction site [nucleotide binding]; other site 1311004623 streptomycin interaction site [chemical binding]; other site 1311004624 23S rRNA interaction site [nucleotide binding]; other site 1311004625 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1311004626 pur operon repressor; Provisional; Region: PRK09213 1311004627 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1311004628 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1311004629 active site 1311004630 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 1311004631 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...; Region: YhaM_OBF_like; cd04492 1311004632 generic binding surface II; other site 1311004633 generic binding surface I; other site 1311004634 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1311004635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311004636 Zn2+ binding site [ion binding]; other site 1311004637 Mg2+ binding site [ion binding]; other site 1311004638 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1311004639 RmuC family; Region: RmuC; pfam02646 1311004640 Thiamine pyrophosphokinase; Region: TPK; cd07995 1311004641 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1311004642 active site 1311004643 dimerization interface [polypeptide binding]; other site 1311004644 thiamine binding site [chemical binding]; other site 1311004645 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1311004646 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 1311004647 substrate binding site [chemical binding]; other site 1311004648 hexamer interface [polypeptide binding]; other site 1311004649 metal binding site [ion binding]; metal-binding site 1311004650 GTPase RsgA; Reviewed; Region: PRK00098 1311004651 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 1311004652 RNA binding site [nucleotide binding]; other site 1311004653 homodimer interface [polypeptide binding]; other site 1311004654 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1311004655 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1311004656 GTP/Mg2+ binding site [chemical binding]; other site 1311004657 G4 box; other site 1311004658 G1 box; other site 1311004659 Switch I region; other site 1311004660 G2 box; other site 1311004661 G3 box; other site 1311004662 Switch II region; other site 1311004663 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1311004664 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 1311004665 S-adenosylmethionine binding site [chemical binding]; other site 1311004666 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1311004667 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 1311004668 S-adenosylmethionine binding site [chemical binding]; other site 1311004669 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1311004670 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1311004671 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1311004672 conserved cys residue [active] 1311004673 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1311004674 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 1311004675 putative active site [active] 1311004676 putative metal binding site [ion binding]; other site 1311004677 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1311004678 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1311004679 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1311004680 active site 1311004681 triacylglycerol lipase; Region: PLN00413 1311004682 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1311004683 DltD N-terminal region; Region: DltD_N; pfam04915 1311004684 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1311004685 DltD central region; Region: DltD_M; pfam04918 1311004686 DltD C-terminal region; Region: DltD_C; pfam04914 1311004687 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 1311004688 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 1311004689 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1311004690 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 1311004691 acyl-activating enzyme (AAE) consensus motif; other site 1311004692 AMP binding site [chemical binding]; other site 1311004693 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311004694 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 1311004695 active site 1311004696 phosphorylation site [posttranslational modification] 1311004697 intermolecular recognition site; other site 1311004698 dimerization interface [polypeptide binding]; other site 1311004699 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 1311004700 DNA binding site [nucleotide binding] 1311004701 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1311004702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1311004703 Nucleoside recognition; Region: Gate; pfam07670 1311004704 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1311004705 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 1311004706 dimer interface [polypeptide binding]; other site 1311004707 conserved gate region; other site 1311004708 putative PBP binding loops; other site 1311004709 ABC-ATPase subunit interface; other site 1311004710 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1311004711 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1311004712 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1311004713 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1311004714 Walker A/P-loop; other site 1311004715 ATP binding site [chemical binding]; other site 1311004716 Q-loop/lid; other site 1311004717 ABC transporter signature motif; other site 1311004718 Walker B; other site 1311004719 D-loop; other site 1311004720 H-loop/switch region; other site 1311004721 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 1311004722 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1311004723 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1311004724 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1311004725 PRD domain; Region: PRD; pfam00874 1311004726 PRD domain; Region: PRD; pfam00874 1311004727 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 1311004728 active site 1311004729 P-loop; other site 1311004730 phosphorylation site [posttranslational modification] 1311004731 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1311004732 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1311004733 putative N- and C-terminal domain interface [polypeptide binding]; other site 1311004734 putative active site [active] 1311004735 MgATP binding site [chemical binding]; other site 1311004736 catalytic site [active] 1311004737 metal binding site [ion binding]; metal-binding site 1311004738 putative xylulose binding site [chemical binding]; other site 1311004739 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1311004740 Amidohydrolase; Region: Amidohydro_2; pfam04909 1311004741 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1311004742 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 1311004743 putative ligand binding site [chemical binding]; other site 1311004744 putative NAD binding site [chemical binding]; other site 1311004745 catalytic site [active] 1311004746 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1311004747 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1311004748 DNA binding site [nucleotide binding] 1311004749 domain linker motif; other site 1311004750 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1311004751 putative dimerization interface [polypeptide binding]; other site 1311004752 putative ligand binding site [chemical binding]; other site 1311004753 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1311004754 active site 1311004755 intersubunit interactions; other site 1311004756 catalytic residue [active] 1311004757 L-ribulose-5-phosphate 4-epimerase; Provisional; Region: araD; PRK13145 1311004758 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1311004759 intersubunit interface [polypeptide binding]; other site 1311004760 active site 1311004761 Zn2+ binding site [ion binding]; other site 1311004762 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1311004763 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 1311004764 AP (apurinic/apyrimidinic) site pocket; other site 1311004765 DNA interaction; other site 1311004766 Metal-binding active site; metal-binding site 1311004767 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 1311004768 active site 1311004769 dimer interface [polypeptide binding]; other site 1311004770 magnesium binding site [ion binding]; other site 1311004771 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 1311004772 active site 1311004773 phosphorylation site [posttranslational modification] 1311004774 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 1311004775 active site 1311004776 P-loop; other site 1311004777 phosphorylation site [posttranslational modification] 1311004778 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: PRK12997 1311004779 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 1311004780 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1311004781 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 1311004782 GDP-binding site [chemical binding]; other site 1311004783 ACT binding site; other site 1311004784 IMP binding site; other site 1311004785 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1311004786 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 1311004787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1311004788 YheO-like PAS domain; Region: PAS_6; pfam08348 1311004789 HTH domain; Region: HTH_22; pfam13309 1311004790 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1311004791 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1311004792 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1311004793 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 1311004794 Uncharacterized protein involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TelA; COG3853 1311004795 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1311004796 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 1311004797 dimerization interface [polypeptide binding]; other site 1311004798 domain crossover interface; other site 1311004799 redox-dependent activation switch; other site 1311004800 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1311004801 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 1311004802 FMN binding site [chemical binding]; other site 1311004803 active site 1311004804 catalytic residues [active] 1311004805 substrate binding site [chemical binding]; other site 1311004806 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1311004807 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 1311004808 Substrate-binding site [chemical binding]; other site 1311004809 Substrate specificity [chemical binding]; other site 1311004810 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1311004811 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311004812 Coenzyme A binding pocket [chemical binding]; other site 1311004813 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1311004814 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 1311004815 Walker A motif; other site 1311004816 ATP binding site [chemical binding]; other site 1311004817 Walker B motif; other site 1311004818 arginine finger; other site 1311004819 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 1311004820 Walker A motif; other site 1311004821 ATP binding site [chemical binding]; other site 1311004822 Walker B motif; other site 1311004823 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1311004824 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 1311004825 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 1311004826 elongation factor Ts; Provisional; Region: tsf; PRK09377 1311004827 UBA/TS-N domain; Region: UBA; pfam00627 1311004828 Elongation factor TS; Region: EF_TS; pfam00889 1311004829 Elongation factor TS; Region: EF_TS; pfam00889 1311004830 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 1311004831 rRNA interaction site [nucleotide binding]; other site 1311004832 S8 interaction site; other site 1311004833 putative laminin-1 binding site; other site 1311004834 peroxiredoxin; Region: AhpC; TIGR03137 1311004835 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 1311004836 dimer interface [polypeptide binding]; other site 1311004837 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1311004838 catalytic triad [active] 1311004839 peroxidatic and resolving cysteines [active] 1311004840 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1311004841 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 1311004842 catalytic residue [active] 1311004843 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 1311004844 catalytic residues [active] 1311004845 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1311004846 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1311004847 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1311004848 putative dimer interface [polypeptide binding]; other site 1311004849 catalytic triad [active] 1311004850 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1311004851 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1311004852 active site 1311004853 Zn binding site [ion binding]; other site 1311004854 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1311004855 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1311004856 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1311004857 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 1311004858 putative substrate translocation pore; other site 1311004859 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311004860 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 1311004861 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 1311004862 ligand binding site [chemical binding]; other site 1311004863 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1311004864 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 1311004865 active site 1311004866 catalytic residues [active] 1311004867 metal binding site [ion binding]; metal-binding site 1311004868 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1311004869 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1311004870 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1311004871 active site 1311004872 intersubunit interface [polypeptide binding]; other site 1311004873 catalytic residue [active] 1311004874 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1311004875 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1311004876 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 1311004877 generic binding surface II; other site 1311004878 generic binding surface I; other site 1311004879 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1311004880 active site 1311004881 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1311004882 active site 1311004883 catalytic site [active] 1311004884 substrate binding site [chemical binding]; other site 1311004885 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 1311004886 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1311004887 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1311004888 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1311004889 motif 1; other site 1311004890 dimer interface [polypeptide binding]; other site 1311004891 active site 1311004892 motif 2; other site 1311004893 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 1311004894 putative deacylase active site [active] 1311004895 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1311004896 active site 1311004897 motif 3; other site 1311004898 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 1311004899 anticodon binding site; other site 1311004900 RIP metalloprotease RseP; Region: TIGR00054 1311004901 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1311004902 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1311004903 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 1311004904 protein binding site [polypeptide binding]; other site 1311004905 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 1311004906 putative substrate binding region [chemical binding]; other site 1311004907 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1311004908 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1311004909 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1311004910 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 1311004911 catalytic residue [active] 1311004912 putative FPP diphosphate binding site; other site 1311004913 putative FPP binding hydrophobic cleft; other site 1311004914 dimer interface [polypeptide binding]; other site 1311004915 putative IPP diphosphate binding site; other site 1311004916 preprotein translocase subunit YajC; Validated; Region: yajC; PRK06531 1311004917 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 1311004918 catalytic residues [active] 1311004919 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1311004920 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 1311004921 active site 1311004922 phosphorylation site [posttranslational modification] 1311004923 intermolecular recognition site; other site 1311004924 dimerization interface [polypeptide binding]; other site 1311004925 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1311004926 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1311004927 NAD binding site [chemical binding]; other site 1311004928 homodimer interface [polypeptide binding]; other site 1311004929 active site 1311004930 substrate binding site [chemical binding]; other site 1311004931 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1311004932 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1311004933 Walker A/P-loop; other site 1311004934 ATP binding site [chemical binding]; other site 1311004935 Q-loop/lid; other site 1311004936 ABC transporter signature motif; other site 1311004937 Walker B; other site 1311004938 D-loop; other site 1311004939 H-loop/switch region; other site 1311004940 TOBE domain; Region: TOBE_2; pfam08402 1311004941 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1311004942 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1311004943 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1311004944 active site 1311004945 catalytic residues [active] 1311004946 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12399 1311004947 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 1311004948 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1311004949 putative substrate binding site [chemical binding]; other site 1311004950 putative ATP binding site [chemical binding]; other site 1311004951 galactose-6-phosphate isomerase subunit LacB; Reviewed; Region: PRK08622 1311004952 galactose-6-phosphate isomerase subunit LacA; Reviewed; Region: PRK08621 1311004953 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 1311004954 active site 1311004955 phosphorylation site [posttranslational modification] 1311004956 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1311004957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311004958 DNA-binding site [nucleotide binding]; DNA binding site 1311004959 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1311004960 streptococcal histidine triad protein; Region: strep_his_triad; TIGR01363 1311004961 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1311004962 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1311004963 Streptococcal histidine triad protein; Region: Strep_his_triad; pfam04270 1311004964 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1311004965 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1311004966 intersubunit interface [polypeptide binding]; other site 1311004967 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 1311004968 putative active site [active] 1311004969 dimerization interface [polypeptide binding]; other site 1311004970 putative tRNAtyr binding site [nucleotide binding]; other site 1311004971 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1311004972 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1311004973 Zn2+ binding site [ion binding]; other site 1311004974 Mg2+ binding site [ion binding]; other site 1311004975 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1311004976 synthetase active site [active] 1311004977 NTP binding site [chemical binding]; other site 1311004978 metal binding site [ion binding]; metal-binding site 1311004979 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 1311004980 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1311004981 flavoprotein NrdI; Provisional; Region: PRK02551 1311004982 hypothetical protein; Provisional; Region: PRK06762 1311004983 AAA domain; Region: AAA_33; pfam13671 1311004984 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1311004985 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1311004986 Response regulator receiver domain; Region: Response_reg; pfam00072 1311004987 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 1311004988 active site 1311004989 phosphorylation site [posttranslational modification] 1311004990 intermolecular recognition site; other site 1311004991 dimerization interface [polypeptide binding]; other site 1311004992 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1311004993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311004994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1311004995 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1311004996 Histidine kinase; Region: His_kinase; pfam06580 1311004997 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 1311004998 ATP binding site [chemical binding]; other site 1311004999 Mg2+ binding site [ion binding]; other site 1311005000 G-X-G motif; other site 1311005001 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1311005002 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1311005003 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 1311005004 active site 1311005005 phosphorylation site [posttranslational modification] 1311005006 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1311005007 active site 1311005008 active pocket/dimerization site; other site 1311005009 phosphorylation site [posttranslational modification] 1311005010 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1311005011 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1311005012 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 1311005013 Walker A/P-loop; other site 1311005014 ATP binding site [chemical binding]; other site 1311005015 Q-loop/lid; other site 1311005016 ABC transporter signature motif; other site 1311005017 Walker B; other site 1311005018 D-loop; other site 1311005019 H-loop/switch region; other site 1311005020 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 1311005021 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 1311005022 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1311005023 putative active site [active] 1311005024 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1311005025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311005026 Walker A/P-loop; other site 1311005027 ATP binding site [chemical binding]; other site 1311005028 Q-loop/lid; other site 1311005029 ABC transporter signature motif; other site 1311005030 Walker B; other site 1311005031 D-loop; other site 1311005032 H-loop/switch region; other site 1311005033 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1311005034 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1311005035 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 1311005036 active site 1311005037 phosphorylation site [posttranslational modification] 1311005038 intermolecular recognition site; other site 1311005039 dimerization interface [polypeptide binding]; other site 1311005040 LytTr DNA-binding domain; Region: LytTR; pfam04397 1311005041 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1311005042 putative catalytic site [active] 1311005043 putative metal binding site [ion binding]; other site 1311005044 putative phosphate binding site [ion binding]; other site 1311005045 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1311005046 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1311005047 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 1311005048 active site turn [active] 1311005049 phosphorylation site [posttranslational modification] 1311005050 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1311005051 HPr interaction site; other site 1311005052 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1311005053 active site 1311005054 phosphorylation site [posttranslational modification] 1311005055 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 1311005056 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311005057 active site 1311005058 phosphorylation site [posttranslational modification] 1311005059 intermolecular recognition site; other site 1311005060 dimerization interface [polypeptide binding]; other site 1311005061 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 1311005062 DNA binding site [nucleotide binding] 1311005063 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1311005064 PhoU domain; Region: PhoU; pfam01895 1311005065 PhoU domain; Region: PhoU; pfam01895 1311005066 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1311005067 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 1311005068 dimer interface [polypeptide binding]; other site 1311005069 conserved gate region; other site 1311005070 putative PBP binding loops; other site 1311005071 ABC-ATPase subunit interface; other site 1311005072 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1311005073 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 1311005074 dimer interface [polypeptide binding]; other site 1311005075 conserved gate region; other site 1311005076 putative PBP binding loops; other site 1311005077 ABC-ATPase subunit interface; other site 1311005078 PBP superfamily domain; Region: PBP_like_2; cl17296 1311005079 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1311005080 PBP superfamily domain; Region: PBP_like_2; cl17296 1311005081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1311005082 RNA methyltransferase, RsmE family; Region: TIGR00046 1311005083 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1311005084 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 1311005085 S-adenosylmethionine binding site [chemical binding]; other site 1311005086 MepB protein; Region: MepB; pfam08877 1311005087 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1311005088 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1311005089 DNA binding residues [nucleotide binding] 1311005090 dimer interface [polypeptide binding]; other site 1311005091 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1311005092 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_23; cd04682 1311005093 nudix motif; other site 1311005094 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1311005095 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1311005096 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 1311005097 non-specific DNA binding site [nucleotide binding]; other site 1311005098 salt bridge; other site 1311005099 sequence-specific DNA binding site [nucleotide binding]; other site 1311005100 putative acetyltransferase; Provisional; Region: PRK03624 1311005101 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1311005102 recombination factor protein RarA; Reviewed; Region: PRK13342 1311005103 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 1311005104 Walker A motif; other site 1311005105 ATP binding site [chemical binding]; other site 1311005106 Walker B motif; other site 1311005107 arginine finger; other site 1311005108 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1311005109 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 1311005110 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 1311005111 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1311005112 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 1311005113 non-specific DNA binding site [nucleotide binding]; other site 1311005114 salt bridge; other site 1311005115 sequence-specific DNA binding site [nucleotide binding]; other site 1311005116 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 1311005117 active site 1311005118 putative transposase OrfB; Reviewed; Region: PHA02517 1311005119 HTH-like domain; Region: HTH_21; pfam13276 1311005120 Integrase core domain; Region: rve; pfam00665 1311005121 Integrase core domain; Region: rve_3; cl15866 1311005122 CAAX protease self-immunity; Region: Abi; pfam02517 1311005123 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 1311005124 active site residue [active] 1311005125 topology modulation protein; Provisional; Region: PRK07261 1311005126 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cd02019 1311005127 active site 1311005128 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1311005129 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 1311005130 putative active site [active] 1311005131 metal binding site [ion binding]; metal-binding site 1311005132 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1311005133 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1311005134 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1311005135 THF binding site; other site 1311005136 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1311005137 substrate binding site [chemical binding]; other site 1311005138 THF binding site; other site 1311005139 zinc-binding site [ion binding]; other site 1311005140 Predicted membrane protein [Function unknown]; Region: COG4392 1311005141 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1311005142 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1311005143 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 1311005144 active site 1311005145 phosphorylation site [posttranslational modification] 1311005146 intermolecular recognition site; other site 1311005147 dimerization interface [polypeptide binding]; other site 1311005148 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 1311005149 DNA binding site [nucleotide binding] 1311005150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311005151 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 1311005152 dimer interface [polypeptide binding]; other site 1311005153 phosphorylation site [posttranslational modification] 1311005154 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 1311005155 ATP binding site [chemical binding]; other site 1311005156 Mg2+ binding site [ion binding]; other site 1311005157 G-X-G motif; other site 1311005158 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1311005159 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1311005160 HIGH motif; other site 1311005161 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1311005162 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1311005163 active site 1311005164 KMSKS motif; other site 1311005165 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1311005166 tRNA binding surface [nucleotide binding]; other site 1311005167 putative sialic acid transporter; Provisional; Region: PRK12307 1311005168 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 1311005169 putative substrate translocation pore; other site 1311005170 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 1311005171 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1311005172 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1311005173 active site 1311005174 nucleophile elbow; other site 1311005175 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1311005176 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1311005177 putative homodimer interface [polypeptide binding]; other site 1311005178 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1311005179 heterodimer interface [polypeptide binding]; other site 1311005180 homodimer interface [polypeptide binding]; other site 1311005181 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1311005182 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1311005183 Gram positive anchor; Region: Gram_pos_anchor; pfam00746 1311005184 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 1311005185 Transglycosylase; Region: Transgly; pfam00912 1311005186 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1311005187 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1311005188 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1311005189 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1311005190 active site 1311005191 Predicted membrane protein [Function unknown]; Region: COG4640 1311005192 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1311005193 intersubunit interface [polypeptide binding]; other site 1311005194 active site 1311005195 catalytic residue [active] 1311005196 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1311005197 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1311005198 Nucleoside recognition; Region: Gate; pfam07670 1311005199 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1311005200 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1311005201 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1311005202 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1311005203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1311005204 DNA-binding site [nucleotide binding]; DNA binding site 1311005205 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1311005206 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 1311005207 ring oligomerisation interface [polypeptide binding]; other site 1311005208 ATP/Mg binding site [chemical binding]; other site 1311005209 stacking interactions; other site 1311005210 hinge regions; other site 1311005211 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 1311005212 oligomerisation interface [polypeptide binding]; other site 1311005213 mobile loop; other site 1311005214 roof hairpin; other site 1311005215 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1311005216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311005217 Walker A/P-loop; other site 1311005218 ATP binding site [chemical binding]; other site 1311005219 Q-loop/lid; other site 1311005220 ABC transporter signature motif; other site 1311005221 Walker B; other site 1311005222 D-loop; other site 1311005223 H-loop/switch region; other site 1311005224 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1311005225 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 1311005226 TM-ABC transporter signature motif; other site 1311005227 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 1311005228 zinc binding site [ion binding]; other site 1311005229 putative ligand binding site [chemical binding]; other site 1311005230 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 1311005231 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1311005232 active site 1311005233 motif I; other site 1311005234 motif II; other site 1311005235 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1311005236 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1311005237 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 1311005238 putative metal binding site [ion binding]; other site 1311005239 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1311005240 hypothetical protein; Validated; Region: PRK02101 1311005241 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1311005242 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 1311005243 FeS/SAM binding site; other site 1311005244 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1311005245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1311005246 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1311005247 ATP cone domain; Region: ATP-cone; pfam03477 1311005248 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1311005249 effector binding site; other site 1311005250 active site 1311005251 Zn binding site [ion binding]; other site 1311005252 glycine loop; other site 1311005253 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1311005254 hypothetical protein; Provisional; Region: PRK13678 1311005255 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1311005256 hypothetical protein; Provisional; Region: PRK05473 1311005257 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 1311005258 ArsC family; Region: ArsC; pfam03960 1311005259 putative catalytic residues [active] 1311005260 thiol/disulfide switch; other site 1311005261 recombinase A; Provisional; Region: recA; PRK09354 1311005262 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 1311005263 hexamer interface [polypeptide binding]; other site 1311005264 Walker A motif; other site 1311005265 ATP binding site [chemical binding]; other site 1311005266 Walker B motif; other site 1311005267 competence damage-inducible protein A; Provisional; Region: PRK00549 1311005268 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 1311005269 putative MPT binding site; other site 1311005270 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1311005271 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1311005272 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1311005273 RuvA N terminal domain; Region: RuvA_N; pfam01330 1311005274 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 1311005275 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1311005276 putative substrate translocation pore; other site 1311005277 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1311005278 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 1311005279 ATP binding site [chemical binding]; other site 1311005280 Mg2+ binding site [ion binding]; other site 1311005281 G-X-G motif; other site 1311005282 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 1311005283 ATP binding site [chemical binding]; other site 1311005284 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1311005285 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1311005286 DNA-binding site [nucleotide binding]; DNA binding site 1311005287 RNA-binding motif; other site 1311005288 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1311005289 MutS domain I; Region: MutS_I; pfam01624 1311005290 MutS domain II; Region: MutS_II; pfam05188 1311005291 MutS domain III; Region: MutS_III; pfam05192 1311005292 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1311005293 Walker A/P-loop; other site 1311005294 ATP binding site [chemical binding]; other site 1311005295 Q-loop/lid; other site 1311005296 ABC transporter signature motif; other site 1311005297 Walker B; other site 1311005298 D-loop; other site 1311005299 H-loop/switch region; other site 1311005300 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1311005301 arginine repressor; Region: argR_whole; TIGR01529 1311005302 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1311005303 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1311005304 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1311005305 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1311005306 active site 1311005307 HIGH motif; other site 1311005308 KMSK motif region; other site 1311005309 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1311005310 tRNA binding surface [nucleotide binding]; other site 1311005311 anticodon binding site; other site 1311005312 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1311005313 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1311005314 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1311005315 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1311005316 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1311005317 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1311005318 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1311005319 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1311005320 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 1311005321 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1311005322 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 1311005323 dimer interface [polypeptide binding]; other site 1311005324 anticodon binding site; other site 1311005325 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1311005326 homodimer interface [polypeptide binding]; other site 1311005327 motif 1; other site 1311005328 active site 1311005329 motif 2; other site 1311005330 GAD domain; Region: GAD; pfam02938 1311005331 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1311005332 motif 3; other site 1311005333 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1311005334 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1311005335 dimer interface [polypeptide binding]; other site 1311005336 motif 1; other site 1311005337 active site 1311005338 motif 2; other site 1311005339 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 1311005340 anticodon binding site; other site 1311005341 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1311005342 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1311005343 carbamate kinase; Reviewed; Region: PRK12686 1311005344 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 1311005345 putative substrate binding site [chemical binding]; other site 1311005346 nucleotide binding site [chemical binding]; other site 1311005347 nucleotide binding site [chemical binding]; other site 1311005348 homodimer interface [polypeptide binding]; other site 1311005349 ornithine carbamoyltransferase; Provisional; Region: PRK04284 1311005350 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1311005351 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1311005352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1311005353 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 1311005354 ATP binding site [chemical binding]; other site 1311005355 Mg2+ binding site [ion binding]; other site 1311005356 G-X-G motif; other site 1311005357 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1311005358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311005359 Walker A/P-loop; other site 1311005360 ATP binding site [chemical binding]; other site 1311005361 Q-loop/lid; other site 1311005362 ABC transporter signature motif; other site 1311005363 Walker B; other site 1311005364 D-loop; other site 1311005365 H-loop/switch region; other site 1311005366 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 1311005367 dimer interface [polypeptide binding]; other site 1311005368 conserved gate region; other site 1311005369 ABC-ATPase subunit interface; other site 1311005370 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1311005371 Predicted integral membrane protein [Function unknown]; Region: COG0392 1311005372 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1311005373 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1311005374 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1311005375 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1311005376 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1311005377 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1311005378 Predicted membrane protein [Function unknown]; Region: COG1511 1311005379 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1311005380 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1311005381 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1311005382 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1311005383 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1311005384 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1311005385 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 1311005386 RNA binding surface [nucleotide binding]; other site 1311005387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: Veg; COG4466 1311005388 replicative DNA helicase; Provisional; Region: PRK05748 1311005389 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1311005390 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 1311005391 Walker A motif; other site 1311005392 ATP binding site [chemical binding]; other site 1311005393 Walker B motif; other site 1311005394 DNA binding loops [nucleotide binding] 1311005395 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1311005396 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1311005397 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1311005398 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1311005399 DHH family; Region: DHH; pfam01368 1311005400 DHHA1 domain; Region: DHHA1; pfam02272 1311005401 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1311005402 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1311005403 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1311005404 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1311005405 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1311005406 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 1311005407 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1311005408 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1311005409 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1311005410 putative L-serine binding site [chemical binding]; other site 1311005411 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1311005412 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1311005413 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1311005414 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1311005415 catalytic residue [active] 1311005416 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1311005417 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1311005418 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1311005419 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311005420 Walker A/P-loop; other site 1311005421 ATP binding site [chemical binding]; other site 1311005422 Q-loop/lid; other site 1311005423 ABC transporter signature motif; other site 1311005424 Walker B; other site 1311005425 D-loop; other site 1311005426 H-loop/switch region; other site 1311005427 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1311005428 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1311005429 Walker A/P-loop; other site 1311005430 ATP binding site [chemical binding]; other site 1311005431 Q-loop/lid; other site 1311005432 ABC transporter signature motif; other site 1311005433 Walker B; other site 1311005434 D-loop; other site 1311005435 H-loop/switch region; other site 1311005436 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1311005437 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1311005438 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1311005439 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1311005440 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1311005441 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1311005442 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 1311005443 RNA binding surface [nucleotide binding]; other site 1311005444 recombination protein F; Reviewed; Region: recF; PRK00064 1311005445 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1311005446 Walker A/P-loop; other site 1311005447 ATP binding site [chemical binding]; other site 1311005448 Q-loop/lid; other site 1311005449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311005450 ABC transporter signature motif; other site 1311005451 Walker B; other site 1311005452 D-loop; other site 1311005453 H-loop/switch region; other site 1311005454 Sugar transport protein; Region: Sugar_transport; pfam06800 1311005455 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 1311005456 non-specific DNA binding site [nucleotide binding]; other site 1311005457 salt bridge; other site 1311005458 sequence-specific DNA binding site [nucleotide binding]; other site 1311005459 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1311005460 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1311005461 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1311005462 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1311005463 active site 1311005464 Arginine repressor [Transcription]; Region: ArgR; COG1438 1311005465 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1311005466 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1311005467 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1311005468 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 1311005469 ligand binding site [chemical binding]; other site 1311005470 flexible hinge region; other site 1311005471 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 1311005472 non-specific DNA interactions [nucleotide binding]; other site 1311005473 DNA binding site [nucleotide binding] 1311005474 sequence specific DNA binding site [nucleotide binding]; other site 1311005475 putative cAMP binding site [chemical binding]; other site 1311005476 arginine deiminase; Provisional; Region: PRK01388 1311005477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1311005478 Coenzyme A binding pocket [chemical binding]; other site 1311005479 ornithine carbamoyltransferase; Validated; Region: PRK02102 1311005480 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1311005481 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1311005482 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1311005483 carbamate kinase; Reviewed; Region: PRK12686 1311005484 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 1311005485 putative substrate binding site [chemical binding]; other site 1311005486 nucleotide binding site [chemical binding]; other site 1311005487 nucleotide binding site [chemical binding]; other site 1311005488 homodimer interface [polypeptide binding]; other site 1311005489 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1311005490 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1311005491 active site 1311005492 HIGH motif; other site 1311005493 dimer interface [polypeptide binding]; other site 1311005494 KMSKS motif; other site 1311005495 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1311005496 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1311005497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1311005498 Walker A/P-loop; other site 1311005499 ATP binding site [chemical binding]; other site 1311005500 Q-loop/lid; other site 1311005501 ABC transporter signature motif; other site 1311005502 Walker B; other site 1311005503 D-loop; other site 1311005504 H-loop/switch region; other site 1311005505 ABC transporter; Region: ABC_tran_2; pfam12848 1311005506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1311005507 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1311005508 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1311005509 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1311005510 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 1311005511 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1311005512 ParB-like nuclease domain; Region: ParBc; pfam02195 1311005513 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775