-- dump date 20140619_094440 -- class Genbank::misc_feature -- table misc_feature_note -- id note 984129000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 984129000002 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 984129000003 Walker A motif; other site 984129000004 ATP binding site [chemical binding]; other site 984129000005 Walker B motif; other site 984129000006 arginine finger; other site 984129000007 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 984129000008 DnaA box-binding interface [nucleotide binding]; other site 984129000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 984129000010 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 984129000011 putative DNA binding surface [nucleotide binding]; other site 984129000012 dimer interface [polypeptide binding]; other site 984129000013 beta-clamp/clamp loader binding surface; other site 984129000014 beta-clamp/translesion DNA polymerase binding surface; other site 984129000015 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129000016 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 984129000017 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 984129000018 Amino acid permease; Region: AA_permease_2; pfam13520 984129000019 EamA-like transporter family; Region: EamA; pfam00892 984129000020 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 984129000021 Terminase small subunit; Region: Terminase_2; cl01513 984129000022 Putative amidotransferase; Region: DUF4066; pfam13278 984129000023 conserved cys residue [active] 984129000024 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 984129000025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 984129000026 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 984129000027 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 984129000028 Stress responsive A/B Barrel Domain; Region: Dabb; cl17744 984129000029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 984129000030 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 984129000031 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 984129000032 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 984129000033 NAD binding site [chemical binding]; other site 984129000034 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 984129000035 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 984129000036 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 984129000037 potential frameshift: common BLAST hit: gi|375265924|ref|YP_005023367.1| chromosome segregation ATPase 984129000038 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 984129000039 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 984129000040 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 984129000041 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984129000042 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984129000043 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 984129000044 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984129000045 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984129000046 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 984129000047 substrate binding site [chemical binding]; other site 984129000048 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 984129000049 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 984129000050 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 984129000051 catalytic site [active] 984129000052 subunit interface [polypeptide binding]; other site 984129000053 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129000054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129000055 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129000056 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 984129000057 catalytic core [active] 984129000058 thiopurine S-methyltransferase; Reviewed; Region: PRK13256 984129000059 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 984129000060 S-adenosylmethionine binding site [chemical binding]; other site 984129000061 dihydroorotase; Reviewed; Region: PRK09236 984129000062 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 984129000063 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 984129000064 active site 984129000065 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 984129000066 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 984129000067 HlyD family secretion protein; Region: HlyD; pfam00529 984129000068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984129000069 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129000070 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129000071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129000072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129000073 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 984129000074 dimerization interface [polypeptide binding]; other site 984129000075 SOUL heme-binding protein; Region: SOUL; pfam04832 984129000076 Chorismate mutase type II; Region: CM_2; smart00830 984129000077 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 984129000078 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 984129000079 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 984129000080 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 984129000081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 984129000082 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 984129000083 active site 984129000084 dimer interface [polypeptide binding]; other site 984129000085 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 984129000086 phosphate binding site [ion binding]; other site 984129000087 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 984129000088 prephenate dehydrogenase; Validated; Region: PRK08507 984129000089 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 984129000090 putative active site [active] 984129000091 dimerization interface [polypeptide binding]; other site 984129000092 putative tRNAtyr binding site [nucleotide binding]; other site 984129000093 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129000094 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 984129000095 putative substrate translocation pore; other site 984129000096 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 984129000097 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 984129000098 substrate binding [chemical binding]; other site 984129000099 active site 984129000100 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 984129000101 tartrate dehydrogenase; Region: TTC; TIGR02089 984129000102 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 984129000103 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 984129000104 substrate binding site [chemical binding]; other site 984129000105 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 984129000106 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 984129000107 substrate binding site [chemical binding]; other site 984129000108 ligand binding site [chemical binding]; other site 984129000109 2-isopropylmalate synthase; Validated; Region: PRK00915 984129000110 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 984129000111 active site 984129000112 catalytic residues [active] 984129000113 metal binding site [ion binding]; metal-binding site 984129000114 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 984129000115 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 984129000116 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 984129000117 homodimer interface [polypeptide binding]; other site 984129000118 substrate-cofactor binding pocket; other site 984129000119 catalytic residue [active] 984129000120 pyruvate phosphate dikinase; Provisional; Region: PRK09279 984129000121 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 984129000122 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 984129000123 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 984129000124 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 984129000125 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 984129000126 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 984129000127 G1 box; other site 984129000128 GTP/Mg2+ binding site [chemical binding]; other site 984129000129 Switch I region; other site 984129000130 G2 box; other site 984129000131 G3 box; other site 984129000132 Switch II region; other site 984129000133 G4 box; other site 984129000134 G5 box; other site 984129000135 Nucleoside recognition; Region: Gate; pfam07670 984129000136 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 984129000137 Nucleoside recognition; Region: Gate; pfam07670 984129000138 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 984129000139 catalytic site [active] 984129000140 putative active site [active] 984129000141 putative substrate binding site [chemical binding]; other site 984129000142 dimer interface [polypeptide binding]; other site 984129000143 elongation factor P; Validated; Region: PRK00529 984129000144 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 984129000145 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 984129000146 RNA binding site [nucleotide binding]; other site 984129000147 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 984129000148 RNA binding site [nucleotide binding]; other site 984129000149 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 984129000150 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 984129000151 putative acyl-acceptor binding pocket; other site 984129000152 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 984129000153 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 984129000154 putative acyl-acceptor binding pocket; other site 984129000155 membrane protein insertase; Provisional; Region: PRK01318 984129000156 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 984129000157 hypothetical protein; Provisional; Region: PRK14375 984129000158 Ribonuclease P; Region: Ribonuclease_P; pfam00825 984129000159 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 984129000160 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 984129000161 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 984129000162 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 984129000163 shikimate binding site; other site 984129000164 NAD(P) binding site [chemical binding]; other site 984129000165 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 984129000166 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984129000167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129000168 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129000169 Predicted methyltransferases [General function prediction only]; Region: COG0313 984129000170 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 984129000171 putative SAM binding site [chemical binding]; other site 984129000172 putative homodimer interface [polypeptide binding]; other site 984129000173 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 984129000174 Mitochondrial PGP phosphatase; Region: PGP_phosphatase; pfam09419 984129000175 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 984129000176 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 984129000177 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 984129000178 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 984129000179 PLD-like domain; Region: PLDc_2; pfam13091 984129000180 putative homodimer interface [polypeptide binding]; other site 984129000181 putative active site [active] 984129000182 catalytic site [active] 984129000183 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 984129000184 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 984129000185 ATP binding site [chemical binding]; other site 984129000186 putative Mg++ binding site [ion binding]; other site 984129000187 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 984129000188 nucleotide binding region [chemical binding]; other site 984129000189 ATP-binding site [chemical binding]; other site 984129000190 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 984129000191 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 984129000192 Ligand Binding Site [chemical binding]; other site 984129000193 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 984129000194 Ligand Binding Site [chemical binding]; other site 984129000195 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 984129000196 putative substrate translocation pore; other site 984129000197 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 984129000198 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 984129000199 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 984129000200 putative active site [active] 984129000201 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 984129000202 Phosphoesterase family; Region: Phosphoesterase; pfam04185 984129000203 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 984129000204 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 984129000205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129000206 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 984129000207 putative FMN binding site [chemical binding]; other site 984129000208 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 984129000209 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 984129000210 aromatic amino acid transport protein; Region: araaP; TIGR00837 984129000211 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 984129000212 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 984129000213 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 984129000214 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129000215 catalytic residue [active] 984129000216 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984129000217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129000218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129000219 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 984129000220 putative effector binding pocket; other site 984129000221 dimerization interface [polypeptide binding]; other site 984129000222 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 984129000223 putative substrate translocation pore; other site 984129000224 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 984129000225 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 984129000226 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 984129000227 dimer interface [polypeptide binding]; other site 984129000228 active site 984129000229 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 984129000230 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 984129000231 GTP-binding protein LepA; Provisional; Region: PRK05433 984129000232 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 984129000233 G1 box; other site 984129000234 putative GEF interaction site [polypeptide binding]; other site 984129000235 GTP/Mg2+ binding site [chemical binding]; other site 984129000236 Switch I region; other site 984129000237 G2 box; other site 984129000238 G3 box; other site 984129000239 Switch II region; other site 984129000240 G4 box; other site 984129000241 G5 box; other site 984129000242 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 984129000243 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 984129000244 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 984129000245 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 984129000246 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 984129000247 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 984129000248 active site 984129000249 catalytic residues [active] 984129000250 metal binding site [ion binding]; metal-binding site 984129000251 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 984129000252 homopentamer interface [polypeptide binding]; other site 984129000253 active site 984129000254 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 984129000255 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 984129000256 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 984129000257 dimerization interface [polypeptide binding]; other site 984129000258 active site 984129000259 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 984129000260 Lumazine binding domain; Region: Lum_binding; pfam00677 984129000261 Lumazine binding domain; Region: Lum_binding; pfam00677 984129000262 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 984129000263 catalytic motif [active] 984129000264 Zn binding site [ion binding]; other site 984129000265 RibD C-terminal domain; Region: RibD_C; cl17279 984129000266 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 984129000267 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 984129000268 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 984129000269 dimer interface [polypeptide binding]; other site 984129000270 PYR/PP interface [polypeptide binding]; other site 984129000271 TPP binding site [chemical binding]; other site 984129000272 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 984129000273 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 984129000274 TPP-binding site [chemical binding]; other site 984129000275 dimer interface [polypeptide binding]; other site 984129000276 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 984129000277 dimer interface [polypeptide binding]; other site 984129000278 [2Fe-2S] cluster binding site [ion binding]; other site 984129000279 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 984129000280 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 984129000281 tandem repeat interface [polypeptide binding]; other site 984129000282 oligomer interface [polypeptide binding]; other site 984129000283 active site residues [active] 984129000284 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 984129000285 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 984129000286 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 984129000287 SecA binding site; other site 984129000288 Preprotein binding site; other site 984129000289 recombinase A; Provisional; Region: recA; PRK09354 984129000290 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 984129000291 hexamer interface [polypeptide binding]; other site 984129000292 Walker A motif; other site 984129000293 ATP binding site [chemical binding]; other site 984129000294 Walker B motif; other site 984129000295 recombination regulator RecX; Reviewed; Region: recX; PRK00117 984129000296 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 984129000297 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 984129000298 dimer interface [polypeptide binding]; other site 984129000299 ssDNA binding site [nucleotide binding]; other site 984129000300 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984129000301 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 984129000302 propionate/acetate kinase; Provisional; Region: PRK12379 984129000303 phosphate acetyltransferase; Reviewed; Region: PRK05632 984129000304 DRTGG domain; Region: DRTGG; pfam07085 984129000305 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 984129000306 succinic semialdehyde dehydrogenase; Region: PLN02278 984129000307 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 984129000308 tetramerization interface [polypeptide binding]; other site 984129000309 NAD(P) binding site [chemical binding]; other site 984129000310 catalytic residues [active] 984129000311 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129000312 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 984129000313 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 984129000314 dimer interface [polypeptide binding]; other site 984129000315 anticodon binding site; other site 984129000316 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 984129000317 homodimer interface [polypeptide binding]; other site 984129000318 motif 1; other site 984129000319 active site 984129000320 motif 2; other site 984129000321 GAD domain; Region: GAD; pfam02938 984129000322 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 984129000323 active site 984129000324 motif 3; other site 984129000325 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 984129000326 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984129000327 putative ADP-binding pocket [chemical binding]; other site 984129000328 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 984129000329 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 984129000330 RNB domain; Region: RNB; pfam00773 984129000331 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 984129000332 putative hydrolase; Provisional; Region: PRK11460 984129000333 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 984129000334 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 984129000335 domain interfaces; other site 984129000336 active site 984129000337 camphor resistance protein CrcB; Provisional; Region: PRK14226 984129000338 Zinc-finger domain; Region: zf-CHCC; cl01821 984129000339 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 984129000340 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 984129000341 dimer interface [polypeptide binding]; other site 984129000342 conserved gate region; other site 984129000343 putative PBP binding loops; other site 984129000344 ABC-ATPase subunit interface; other site 984129000345 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 984129000346 dimer interface [polypeptide binding]; other site 984129000347 conserved gate region; other site 984129000348 putative PBP binding loops; other site 984129000349 ABC-ATPase subunit interface; other site 984129000350 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 984129000351 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 984129000352 Walker A/P-loop; other site 984129000353 ATP binding site [chemical binding]; other site 984129000354 Q-loop/lid; other site 984129000355 ABC transporter signature motif; other site 984129000356 Walker B; other site 984129000357 D-loop; other site 984129000358 H-loop/switch region; other site 984129000359 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 984129000360 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 984129000361 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 984129000362 TrkA-N domain; Region: TrkA_N; pfam02254 984129000363 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 984129000364 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 984129000365 trimer interface [polypeptide binding]; other site 984129000366 putative metal binding site [ion binding]; other site 984129000367 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 984129000368 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 984129000369 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 984129000370 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984129000371 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 984129000372 putative active site [active] 984129000373 Zn binding site [ion binding]; other site 984129000374 YGGT family; Region: YGGT; pfam02325 984129000375 YGGT family; Region: YGGT; pfam02325 984129000376 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 984129000377 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 984129000378 Walker A/P-loop; other site 984129000379 ATP binding site [chemical binding]; other site 984129000380 Q-loop/lid; other site 984129000381 ABC transporter signature motif; other site 984129000382 Walker B; other site 984129000383 D-loop; other site 984129000384 H-loop/switch region; other site 984129000385 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 984129000386 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 984129000387 putative PBP binding loops; other site 984129000388 ABC-ATPase subunit interface; other site 984129000389 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 984129000390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984129000391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 984129000392 Coenzyme A binding pocket [chemical binding]; other site 984129000393 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 984129000394 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 984129000395 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984129000396 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 984129000397 Competence protein; Region: Competence; pfam03772 984129000398 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984129000399 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 984129000400 putative acyl-acceptor binding pocket; other site 984129000401 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 984129000402 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 984129000403 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 984129000404 RNA binding site [nucleotide binding]; other site 984129000405 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 984129000406 RNA binding site [nucleotide binding]; other site 984129000407 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 984129000408 RNA binding site [nucleotide binding]; other site 984129000409 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 984129000410 RNA binding site [nucleotide binding]; other site 984129000411 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 984129000412 RNA binding site [nucleotide binding]; other site 984129000413 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 984129000414 RNA binding site [nucleotide binding]; other site 984129000415 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 984129000416 nucleoside/Zn binding site; other site 984129000417 dimer interface [polypeptide binding]; other site 984129000418 catalytic motif [active] 984129000419 D-alanyl-alanine synthetase A; Provisional; Region: PRK14569 984129000420 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 984129000421 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984129000422 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 984129000423 Cell division protein FtsQ; Region: FtsQ; pfam03799 984129000424 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 984129000425 Cell division protein FtsA; Region: FtsA; smart00842 984129000426 Cell division protein FtsA; Region: FtsA; pfam14450 984129000427 cell division protein FtsZ; Validated; Region: PRK09330 984129000428 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 984129000429 nucleotide binding site [chemical binding]; other site 984129000430 SulA interaction site; other site 984129000431 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 984129000432 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 984129000433 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14957 984129000434 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 984129000435 Walker A motif; other site 984129000436 ATP binding site [chemical binding]; other site 984129000437 Walker B motif; other site 984129000438 DNA polymerase III subunit delta'; Validated; Region: PRK08485 984129000439 arginine finger; other site 984129000440 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 984129000441 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984129000442 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 984129000443 RF-1 domain; Region: RF-1; pfam00472 984129000444 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 984129000445 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 984129000446 dimer interface [polypeptide binding]; other site 984129000447 putative anticodon binding site; other site 984129000448 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 984129000449 motif 1; other site 984129000450 active site 984129000451 motif 2; other site 984129000452 motif 3; other site 984129000453 hypothetical protein; Provisional; Region: PRK05208 984129000454 CAAX protease self-immunity; Region: Abi; pfam02517 984129000455 Eps15 homology domain; Region: EH; smart00027 984129000456 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 984129000457 Glutaminase; Region: Glutaminase; cl00907 984129000458 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129000459 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 984129000460 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 984129000461 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 984129000462 glutamine synthetase; Region: PLN02284 984129000463 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 984129000464 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 984129000465 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 984129000466 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 984129000467 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 984129000468 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 984129000469 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 984129000470 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 984129000471 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 984129000472 purine monophosphate binding site [chemical binding]; other site 984129000473 dimer interface [polypeptide binding]; other site 984129000474 putative catalytic residues [active] 984129000475 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 984129000476 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 984129000477 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 984129000478 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 984129000479 GDP-binding site [chemical binding]; other site 984129000480 ACT binding site; other site 984129000481 IMP binding site; other site 984129000482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129000483 active site 984129000484 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129000485 Dienelactone hydrolase family; Region: DLH; pfam01738 984129000486 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984129000487 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 984129000488 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 984129000489 dimer interface [polypeptide binding]; other site 984129000490 putative PBP binding regions; other site 984129000491 ABC-ATPase subunit interface; other site 984129000492 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984129000493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129000494 Walker A/P-loop; other site 984129000495 ATP binding site [chemical binding]; other site 984129000496 Q-loop/lid; other site 984129000497 ABC transporter signature motif; other site 984129000498 Walker B; other site 984129000499 D-loop; other site 984129000500 H-loop/switch region; other site 984129000501 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 984129000502 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 984129000503 intersubunit interface [polypeptide binding]; other site 984129000504 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 984129000505 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129000506 putative substrate translocation pore; other site 984129000507 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 984129000508 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 984129000509 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984129000510 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 984129000511 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129000512 primosome assembly protein PriA; Validated; Region: PRK05580 984129000513 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 984129000514 ATP binding site [chemical binding]; other site 984129000515 putative Mg++ binding site [ion binding]; other site 984129000516 helicase superfamily c-terminal domain; Region: HELICc; smart00490 984129000517 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 984129000518 putative substrate translocation pore; other site 984129000519 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 984129000520 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 984129000521 substrate binding pocket [chemical binding]; other site 984129000522 membrane-bound complex binding site; other site 984129000523 hinge residues; other site 984129000524 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 984129000525 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 984129000526 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 984129000527 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 984129000528 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 984129000529 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 984129000530 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129000531 putative substrate translocation pore; other site 984129000532 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 984129000533 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 984129000534 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 984129000535 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 984129000536 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 984129000537 D-pathway; other site 984129000538 Putative ubiquinol binding site [chemical binding]; other site 984129000539 Low-spin heme (heme b) binding site [chemical binding]; other site 984129000540 Putative water exit pathway; other site 984129000541 Binuclear center (heme o3/CuB) [ion binding]; other site 984129000542 K-pathway; other site 984129000543 Putative proton exit pathway; other site 984129000544 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 984129000545 Subunit I/III interface [polypeptide binding]; other site 984129000546 Subunit III/IV interface [polypeptide binding]; other site 984129000547 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 984129000548 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 984129000549 UbiA prenyltransferase family; Region: UbiA; pfam01040 984129000550 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 984129000551 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 984129000552 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 984129000553 trimer interface [polypeptide binding]; other site 984129000554 active site 984129000555 UDP-GlcNAc binding site [chemical binding]; other site 984129000556 lipid binding site [chemical binding]; lipid-binding site 984129000557 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1244 984129000558 pyridoxamine kinase; Validated; Region: PRK05756 984129000559 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 984129000560 dimer interface [polypeptide binding]; other site 984129000561 pyridoxal binding site [chemical binding]; other site 984129000562 ATP binding site [chemical binding]; other site 984129000563 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129000564 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 984129000565 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 984129000566 putative active site [active] 984129000567 putative NTP binding site [chemical binding]; other site 984129000568 putative nucleic acid binding site [nucleotide binding]; other site 984129000569 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129000570 MoxR-like ATPases [General function prediction only]; Region: COG0714 984129000571 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 984129000572 Walker A motif; other site 984129000573 ATP binding site [chemical binding]; other site 984129000574 Walker B motif; other site 984129000575 arginine finger; other site 984129000576 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 984129000577 Protein of unknown function DUF58; Region: DUF58; pfam01882 984129000578 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 984129000579 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 984129000580 metal ion-dependent adhesion site (MIDAS); other site 984129000581 hypothetical protein; Provisional; Region: PRK13685 984129000582 von Willebrand factor type A domain; Region: VWA_2; pfam13519 984129000583 metal ion-dependent adhesion site (MIDAS); other site 984129000584 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 984129000585 TPR motif; other site 984129000586 binding surface 984129000587 TPR repeat; Region: TPR_11; pfam13414 984129000588 Oxygen tolerance; Region: BatD; pfam13584 984129000589 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 984129000590 putative substrate binding pocket [chemical binding]; other site 984129000591 AC domain interface; other site 984129000592 catalytic triad [active] 984129000593 AB domain interface; other site 984129000594 interchain disulfide; other site 984129000595 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 984129000596 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 984129000597 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 984129000598 HIGH motif; other site 984129000599 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984129000600 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 984129000601 active site 984129000602 KMSKS motif; other site 984129000603 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 984129000604 tRNA binding surface [nucleotide binding]; other site 984129000605 anticodon binding site; other site 984129000606 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 984129000607 1-deoxy-D-xylulose-5-phosphate synthase; Region: PLN02225 984129000608 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 984129000609 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 984129000610 phosphate binding site [ion binding]; other site 984129000611 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 984129000612 dimer interface [polypeptide binding]; other site 984129000613 FMN binding site [chemical binding]; other site 984129000614 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_31; cd04690 984129000615 nudix motif; other site 984129000616 fumarate hydratase; Reviewed; Region: fumC; PRK00485 984129000617 Class II fumarases; Region: Fumarase_classII; cd01362 984129000618 active site 984129000619 tetramer interface [polypeptide binding]; other site 984129000620 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 984129000621 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984129000622 HIGH motif; other site 984129000623 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 984129000624 active site 984129000625 KMSKS motif; other site 984129000626 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 984129000627 potential frameshift: common BLAST hit: gi|110671028|ref|YP_667585.1| transposase 984129000628 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 984129000629 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 984129000630 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 984129000631 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984129000632 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129000633 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 984129000634 Amidinotransferase; Region: Amidinotransf; pfam02274 984129000635 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 984129000636 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 984129000637 folate binding site [chemical binding]; other site 984129000638 NADP+ binding site [chemical binding]; other site 984129000639 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 984129000640 rRNA interaction site [nucleotide binding]; other site 984129000641 S8 interaction site; other site 984129000642 putative laminin-1 binding site; other site 984129000643 elongation factor Ts; Provisional; Region: tsf; PRK09377 984129000644 UBA/TS-N domain; Region: UBA; pfam00627 984129000645 Elongation factor TS; Region: EF_TS; pfam00889 984129000646 Elongation factor TS; Region: EF_TS; pfam00889 984129000647 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 984129000648 putative nucleotide binding site [chemical binding]; other site 984129000649 uridine monophosphate binding site [chemical binding]; other site 984129000650 homohexameric interface [polypeptide binding]; other site 984129000651 ribosome recycling factor; Reviewed; Region: frr; PRK00083 984129000652 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 984129000653 hinge region; other site 984129000654 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 984129000655 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 984129000656 catalytic residue [active] 984129000657 putative FPP diphosphate binding site; other site 984129000658 putative FPP binding hydrophobic cleft; other site 984129000659 dimer interface [polypeptide binding]; other site 984129000660 putative IPP diphosphate binding site; other site 984129000661 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 984129000662 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 984129000663 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 984129000664 trimer interface [polypeptide binding]; other site 984129000665 active site 984129000666 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 984129000667 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 984129000668 S17 interaction site [polypeptide binding]; other site 984129000669 S8 interaction site; other site 984129000670 16S rRNA interaction site [nucleotide binding]; other site 984129000671 streptomycin interaction site [chemical binding]; other site 984129000672 23S rRNA interaction site [nucleotide binding]; other site 984129000673 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 984129000674 30S ribosomal protein S7; Validated; Region: PRK05302 984129000675 elongation factor G; Reviewed; Region: PRK00007 984129000676 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 984129000677 G1 box; other site 984129000678 putative GEF interaction site [polypeptide binding]; other site 984129000679 GTP/Mg2+ binding site [chemical binding]; other site 984129000680 Switch I region; other site 984129000681 G2 box; other site 984129000682 G3 box; other site 984129000683 Switch II region; other site 984129000684 G4 box; other site 984129000685 G5 box; other site 984129000686 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 984129000687 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 984129000688 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 984129000689 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 984129000690 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 984129000691 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 984129000692 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 984129000693 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 984129000694 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 984129000695 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 984129000696 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 984129000697 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 984129000698 putative translocon binding site; other site 984129000699 protein-rRNA interface [nucleotide binding]; other site 984129000700 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 984129000701 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 984129000702 G-X-X-G motif; other site 984129000703 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 984129000704 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 984129000705 23S rRNA interface [nucleotide binding]; other site 984129000706 5S rRNA interface [nucleotide binding]; other site 984129000707 putative antibiotic binding site [chemical binding]; other site 984129000708 L25 interface [polypeptide binding]; other site 984129000709 L27 interface [polypeptide binding]; other site 984129000710 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 984129000711 23S rRNA interface [nucleotide binding]; other site 984129000712 putative translocon interaction site; other site 984129000713 signal recognition particle (SRP54) interaction site; other site 984129000714 L23 interface [polypeptide binding]; other site 984129000715 trigger factor interaction site; other site 984129000716 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 984129000717 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 984129000718 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 984129000719 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 984129000720 RNA binding site [nucleotide binding]; other site 984129000721 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 984129000722 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 984129000723 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 984129000724 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 984129000725 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 984129000726 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 984129000727 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984129000728 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 984129000729 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 984129000730 23S rRNA interface [nucleotide binding]; other site 984129000731 L21e interface [polypeptide binding]; other site 984129000732 5S rRNA interface [nucleotide binding]; other site 984129000733 L27 interface [polypeptide binding]; other site 984129000734 L5 interface [polypeptide binding]; other site 984129000735 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 984129000736 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 984129000737 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 984129000738 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 984129000739 23S rRNA binding site [nucleotide binding]; other site 984129000740 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 984129000741 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 984129000742 SecY translocase; Region: SecY; pfam00344 984129000743 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 984129000744 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 984129000745 30S ribosomal protein S13; Region: bact_S13; TIGR03631 984129000746 30S ribosomal protein S11; Validated; Region: PRK05309 984129000747 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 984129000748 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 984129000749 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 984129000750 RNA binding surface [nucleotide binding]; other site 984129000751 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 984129000752 alphaNTD homodimer interface [polypeptide binding]; other site 984129000753 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 984129000754 alphaNTD - beta interaction site [polypeptide binding]; other site 984129000755 alphaNTD - beta' interaction site [polypeptide binding]; other site 984129000756 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 984129000757 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 984129000758 heat shock protein 90; Provisional; Region: PRK05218 984129000759 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 984129000760 ATP binding site [chemical binding]; other site 984129000761 Mg2+ binding site [ion binding]; other site 984129000762 G-X-G motif; other site 984129000763 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 984129000764 PLD-like domain; Region: PLDc_2; pfam13091 984129000765 putative homodimer interface [polypeptide binding]; other site 984129000766 putative active site [active] 984129000767 catalytic site [active] 984129000768 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 984129000769 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 984129000770 ATP binding site [chemical binding]; other site 984129000771 putative Mg++ binding site [ion binding]; other site 984129000772 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 984129000773 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 984129000774 nucleotide binding region [chemical binding]; other site 984129000775 ATP-binding site [chemical binding]; other site 984129000776 Abi-like protein; Region: Abi_2; pfam07751 984129000777 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 984129000778 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 984129000779 hypothetical protein; Provisional; Region: PRK11588 984129000780 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 984129000781 CTP synthetase; Validated; Region: pyrG; PRK05380 984129000782 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 984129000783 Catalytic site [active] 984129000784 active site 984129000785 UTP binding site [chemical binding]; other site 984129000786 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 984129000787 active site 984129000788 putative oxyanion hole; other site 984129000789 catalytic triad [active] 984129000790 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 984129000791 active site 984129000792 multimer interface [polypeptide binding]; other site 984129000793 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 984129000794 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 984129000795 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 984129000796 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 984129000797 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 984129000798 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 984129000799 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 984129000800 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 984129000801 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 984129000802 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 984129000803 ferredoxin-NADP reductase; Provisional; Region: PRK10926 984129000804 FAD binding pocket [chemical binding]; other site 984129000805 FAD binding motif [chemical binding]; other site 984129000806 phosphate binding motif [ion binding]; other site 984129000807 beta-alpha-beta structure motif; other site 984129000808 NAD binding pocket [chemical binding]; other site 984129000809 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 984129000810 SnoaL-like domain; Region: SnoaL_2; pfam12680 984129000811 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 984129000812 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 984129000813 potential frameshift: common BLAST hit: gi|337754317|ref|YP_004646828.1| type I restriction-modification system, DNA-methyltransferase 984129000814 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984129000815 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 984129000816 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984129000817 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 984129000818 Fic/DOC family; Region: Fic; pfam02661 984129000819 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 984129000820 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 984129000821 ProQ/FINO family; Region: ProQ; pfam04352 984129000822 Cation transport protein; Region: TrkH; cl17365 984129000823 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 984129000824 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 984129000825 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 984129000826 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 984129000827 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 984129000828 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 984129000829 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 984129000830 active site 984129000831 lysine transporter; Provisional; Region: PRK10836 984129000832 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 984129000833 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 984129000834 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 984129000835 putative active site [active] 984129000836 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 984129000837 Na binding site [ion binding]; other site 984129000838 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 984129000839 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 984129000840 DXD motif; other site 984129000841 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 984129000842 Domain of unknown function DUF21; Region: DUF21; pfam01595 984129000843 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 984129000844 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 984129000845 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 984129000846 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 984129000847 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 984129000848 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 984129000849 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 984129000850 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129000851 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 984129000852 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 984129000853 active site 984129000854 HIGH motif; other site 984129000855 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 984129000856 KMSKS motif; other site 984129000857 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 984129000858 tRNA binding surface [nucleotide binding]; other site 984129000859 anticodon binding site; other site 984129000860 HemK family putative methylases; Region: hemK_fam; TIGR00536 984129000861 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 984129000862 S-adenosylmethionine binding site [chemical binding]; other site 984129000863 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 984129000864 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129000865 putative substrate translocation pore; other site 984129000866 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984129000867 Coenzyme A binding pocket [chemical binding]; other site 984129000868 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 984129000869 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129000870 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 984129000871 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 984129000872 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984129000873 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 984129000874 Methyltransferase domain; Region: Methyltransf_11; pfam08241 984129000875 VacJ like lipoprotein; Region: VacJ; cl01073 984129000876 BolA-like protein; Region: BolA; cl00386 984129000877 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 984129000878 anti sigma factor interaction site; other site 984129000879 regulatory phosphorylation site [posttranslational modification]; other site 984129000880 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 984129000881 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 984129000882 mce related protein; Region: MCE; pfam02470 984129000883 Permease; Region: Permease; pfam02405 984129000884 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 984129000885 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 984129000886 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 984129000887 Walker A/P-loop; other site 984129000888 ATP binding site [chemical binding]; other site 984129000889 Q-loop/lid; other site 984129000890 ABC transporter signature motif; other site 984129000891 Walker B; other site 984129000892 D-loop; other site 984129000893 H-loop/switch region; other site 984129000894 cell division topological specificity factor MinE; Provisional; Region: PRK13990 984129000895 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 984129000896 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 984129000897 Switch I; other site 984129000898 Switch II; other site 984129000899 septum formation inhibitor; Reviewed; Region: minC; PRK04804 984129000900 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 984129000901 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 984129000902 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 984129000903 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 984129000904 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 984129000905 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 984129000906 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 984129000907 ssDNA binding site; other site 984129000908 generic binding surface II; other site 984129000909 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 984129000910 ATP binding site [chemical binding]; other site 984129000911 putative Mg++ binding site [ion binding]; other site 984129000912 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 984129000913 nucleotide binding region [chemical binding]; other site 984129000914 ATP-binding site [chemical binding]; other site 984129000915 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 984129000916 Fumarase C-terminus; Region: Fumerase_C; pfam05683 984129000917 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 984129000918 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_14; cd04672 984129000919 nudix motif; other site 984129000920 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 984129000921 ArsC family; Region: ArsC; pfam03960 984129000922 catalytic residue [active] 984129000923 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 984129000924 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 984129000925 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 984129000926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129000927 homodimer interface [polypeptide binding]; other site 984129000928 catalytic residue [active] 984129000929 TrkA-C domain; Region: TrkA_C; pfam02080 984129000930 TrkA-C domain; Region: TrkA_C; pfam02080 984129000931 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 984129000932 DNA protecting protein DprA; Region: dprA; TIGR00732 984129000933 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 984129000934 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984129000935 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984129000936 ligand binding site [chemical binding]; other site 984129000937 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 984129000938 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984129000939 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 984129000940 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 984129000941 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 984129000942 homotrimer interaction site [polypeptide binding]; other site 984129000943 active site 984129000944 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 984129000945 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 984129000946 TolQ protein; Region: tolQ; TIGR02796 984129000947 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 984129000948 TolR protein; Region: tolR; TIGR02801 984129000949 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 984129000950 TolB amino-terminal domain; Region: TolB_N; pfam04052 984129000951 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 984129000952 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984129000953 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984129000954 ligand binding site [chemical binding]; other site 984129000955 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 984129000956 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984129000957 TRAM domain; Region: TRAM; cl01282 984129000958 C factor cell-cell signaling protein; Provisional; Region: PRK09009 984129000959 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 984129000960 NADP binding site [chemical binding]; other site 984129000961 homodimer interface [polypeptide binding]; other site 984129000962 active site 984129000963 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 984129000964 DNA photolyase; Region: DNA_photolyase; pfam00875 984129000965 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 984129000966 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 984129000967 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 984129000968 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 984129000969 bile acid transporter; Region: bass; TIGR00841 984129000970 Sodium Bile acid symporter family; Region: SBF; cl17470 984129000971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 984129000972 YheO-like PAS domain; Region: PAS_6; pfam08348 984129000973 HTH domain; Region: HTH_22; pfam13309 984129000974 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984129000975 hypothetical protein; Provisional; Region: PRK10621 984129000976 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 984129000977 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 984129000978 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 984129000979 transmembrane helices; other site 984129000980 Protein of unknown function (DUF423); Region: DUF423; pfam04241 984129000981 Protein of unknown function, DUF393; Region: DUF393; pfam04134 984129000982 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 984129000983 UbiA prenyltransferase family; Region: UbiA; pfam01040 984129000984 Chorismate lyase; Region: Chor_lyase; cl01230 984129000985 ribonuclease PH; Reviewed; Region: rph; PRK00173 984129000986 Ribonuclease PH; Region: RNase_PH_bact; cd11362 984129000987 hexamer interface [polypeptide binding]; other site 984129000988 active site 984129000989 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 984129000990 heat shock protein HtpX; Provisional; Region: PRK02870 984129000991 LemA family; Region: LemA; cl00742 984129000992 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 984129000993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129000994 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 984129000995 putative dimerization interface [polypeptide binding]; other site 984129000996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 984129000997 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 984129000998 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984129000999 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984129001000 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 984129001001 dimerization interface [polypeptide binding]; other site 984129001002 putative DNA binding site [nucleotide binding]; other site 984129001003 putative Zn2+ binding site [ion binding]; other site 984129001004 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_C39A; cd02549 984129001005 putative active site [active] 984129001006 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 984129001007 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 984129001008 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 984129001009 Colicin V production protein; Region: Colicin_V; pfam02674 984129001010 DNA repair protein RadA; Provisional; Region: PRK11823 984129001011 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 984129001012 Walker A motif/ATP binding site; other site 984129001013 ATP binding site [chemical binding]; other site 984129001014 Walker B motif; other site 984129001015 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 984129001016 PilZ domain; Region: PilZ; pfam07238 984129001017 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 984129001018 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 984129001019 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 984129001020 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 984129001021 Tetramer interface [polypeptide binding]; other site 984129001022 active site 984129001023 FMN-binding site [chemical binding]; other site 984129001024 PQ loop repeat; Region: PQ-loop; pfam04193 984129001025 methionine sulfoxide reductase B; Provisional; Region: PRK00222 984129001026 SelR domain; Region: SelR; pfam01641 984129001027 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 984129001028 E-class dimer interface [polypeptide binding]; other site 984129001029 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 984129001030 P-class dimer interface [polypeptide binding]; other site 984129001031 active site 984129001032 Cu2+ binding site [ion binding]; other site 984129001033 Zn2+ binding site [ion binding]; other site 984129001034 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 984129001035 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 984129001036 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 984129001037 Cupin domain; Region: Cupin_2; cl17218 984129001038 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 984129001039 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984129001040 NAD(P) binding site [chemical binding]; other site 984129001041 aspartate aminotransferase; Provisional; Region: PRK07568 984129001042 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 984129001043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129001044 homodimer interface [polypeptide binding]; other site 984129001045 catalytic residue [active] 984129001046 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984129001047 Cation efflux family; Region: Cation_efflux; pfam01545 984129001048 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 984129001049 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984129001050 Walker A/P-loop; other site 984129001051 ATP binding site [chemical binding]; other site 984129001052 Q-loop/lid; other site 984129001053 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 984129001054 ABC transporter signature motif; other site 984129001055 Walker B; other site 984129001056 D-loop; other site 984129001057 H-loop/switch region; other site 984129001058 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 984129001059 Pilin (bacterial filament); Region: Pilin; pfam00114 984129001060 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 984129001061 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 984129001062 Pilin (bacterial filament); Region: Pilin; pfam00114 984129001063 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 984129001064 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 984129001065 active site 984129001066 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14180 984129001067 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 984129001068 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 984129001069 homodimer interface [polypeptide binding]; other site 984129001070 NADP binding site [chemical binding]; other site 984129001071 substrate binding site [chemical binding]; other site 984129001072 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 984129001073 GIY-YIG motif/motif A; other site 984129001074 putative active site [active] 984129001075 putative metal binding site [ion binding]; other site 984129001076 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 984129001077 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 984129001078 dimerization interface [polypeptide binding]; other site 984129001079 putative ATP binding site [chemical binding]; other site 984129001080 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 984129001081 active site 984129001082 ATP binding site [chemical binding]; other site 984129001083 substrate binding site [chemical binding]; other site 984129001084 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 984129001085 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 984129001086 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984129001087 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 984129001088 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 984129001089 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 984129001090 active site 984129001091 substrate binding site [chemical binding]; other site 984129001092 cosubstrate binding site; other site 984129001093 catalytic site [active] 984129001094 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 984129001095 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 984129001096 ATP-grasp domain; Region: ATP-grasp; pfam02222 984129001097 hypothetical protein; Provisional; Region: PRK14682 984129001098 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 984129001099 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 984129001100 active site 984129001101 Zn binding site [ion binding]; other site 984129001102 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 984129001103 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 984129001104 O-Antigen ligase; Region: Wzy_C; cl04850 984129001105 DNA topoisomerase I; Validated; Region: PRK06599 984129001106 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 984129001107 active site 984129001108 interdomain interaction site; other site 984129001109 putative metal-binding site [ion binding]; other site 984129001110 nucleotide binding site [chemical binding]; other site 984129001111 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 984129001112 domain I; other site 984129001113 DNA binding groove [nucleotide binding] 984129001114 phosphate binding site [ion binding]; other site 984129001115 domain II; other site 984129001116 domain III; other site 984129001117 nucleotide binding site [chemical binding]; other site 984129001118 catalytic site [active] 984129001119 domain IV; other site 984129001120 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984129001121 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984129001122 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 984129001123 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984129001124 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 984129001125 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 984129001126 P-loop; other site 984129001127 Magnesium ion binding site [ion binding]; other site 984129001128 ParB-like nuclease domain; Region: ParB; smart00470 984129001129 KorB domain; Region: KorB; pfam08535 984129001130 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 984129001131 catalytic triad [active] 984129001132 Fatty acyltransferase-like subfamily of the 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: fatty_acyltransferase_like; cd01846 984129001133 active site 984129001134 catalytic triad [active] 984129001135 oxyanion hole [active] 984129001136 HD domain; Region: HD_3; pfam13023 984129001137 FtsJ-like methyltransferase; Region: FtsJ; cl17430 984129001138 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 984129001139 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 984129001140 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 984129001141 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984129001142 active site 984129001143 HIGH motif; other site 984129001144 nucleotide binding site [chemical binding]; other site 984129001145 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984129001146 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 984129001147 active site 984129001148 KMSKS motif; other site 984129001149 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 984129001150 tRNA binding surface [nucleotide binding]; other site 984129001151 anticodon binding site; other site 984129001152 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 984129001153 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 984129001154 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 984129001155 active site 984129001156 Riboflavin kinase; Region: Flavokinase; pfam01687 984129001157 malate dehydrogenase; Provisional; Region: PRK13529 984129001158 Malic enzyme, N-terminal domain; Region: malic; pfam00390 984129001159 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 984129001160 NAD(P) binding pocket [chemical binding]; other site 984129001161 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 984129001162 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 984129001163 GTP-binding protein Der; Reviewed; Region: PRK00093 984129001164 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 984129001165 G1 box; other site 984129001166 GTP/Mg2+ binding site [chemical binding]; other site 984129001167 Switch I region; other site 984129001168 G2 box; other site 984129001169 Switch II region; other site 984129001170 G3 box; other site 984129001171 G4 box; other site 984129001172 G5 box; other site 984129001173 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 984129001174 G1 box; other site 984129001175 GTP/Mg2+ binding site [chemical binding]; other site 984129001176 Switch I region; other site 984129001177 G2 box; other site 984129001178 G3 box; other site 984129001179 Switch II region; other site 984129001180 G4 box; other site 984129001181 G5 box; other site 984129001182 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 984129001183 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 984129001184 putative active site [active] 984129001185 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 984129001186 FAD binding domain; Region: FAD_binding_4; pfam01565 984129001187 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 984129001188 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 984129001189 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 984129001190 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 984129001191 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129001192 active site 984129001193 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 984129001194 nucleotide binding site/active site [active] 984129001195 HIT family signature motif; other site 984129001196 catalytic residue [active] 984129001197 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 984129001198 ABC1 family; Region: ABC1; cl17513 984129001199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 984129001200 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 984129001201 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 984129001202 S-adenosylmethionine binding site [chemical binding]; other site 984129001203 Glucokinase; Region: Glucokinase; pfam02685 984129001204 glucokinase, proteobacterial type; Region: glk; TIGR00749 984129001205 Intracellular septation protein A; Region: IspA; pfam04279 984129001206 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 984129001207 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 984129001208 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 984129001209 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 984129001210 D-galactonate transporter; Region: 2A0114; TIGR00893 984129001211 putative substrate translocation pore; other site 984129001212 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 984129001213 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984129001214 active site 984129001215 KMSKS motif; other site 984129001216 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 984129001217 tRNA binding surface [nucleotide binding]; other site 984129001218 anticodon binding site; other site 984129001219 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 984129001220 dimer interface [polypeptide binding]; other site 984129001221 putative tRNA-binding site [nucleotide binding]; other site 984129001222 Predicted flavoprotein [General function prediction only]; Region: COG0431 984129001223 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984129001224 potential frameshift: common BLAST hit: gi|379726236|ref|YP_005318422.1| Gentisate 1 2-dioxygenase 984129001225 Cupin domain; Region: Cupin_2; cl17218 984129001226 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 984129001227 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 984129001228 Peptidase family M50; Region: Peptidase_M50; pfam02163 984129001229 active site 984129001230 putative substrate binding region [chemical binding]; other site 984129001231 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 984129001232 DNA binding residues [nucleotide binding] 984129001233 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 984129001234 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 984129001235 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain; Region: NMNAT_Nudix; cd02168 984129001236 active site 984129001237 (T/H)XGH motif; other site 984129001238 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 984129001239 nudix motif; other site 984129001240 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 984129001241 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 984129001242 Substrate binding site; other site 984129001243 Mg++ binding site; other site 984129001244 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 984129001245 active site 984129001246 substrate binding site [chemical binding]; other site 984129001247 CoA binding site [chemical binding]; other site 984129001248 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 984129001249 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 984129001250 glutaminase active site [active] 984129001251 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 984129001252 dimer interface [polypeptide binding]; other site 984129001253 active site 984129001254 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 984129001255 dimer interface [polypeptide binding]; other site 984129001256 active site 984129001257 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 984129001258 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 984129001259 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 984129001260 DNA-binding site [nucleotide binding]; DNA binding site 984129001261 RNA-binding motif; other site 984129001262 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 984129001263 metal binding site [ion binding]; metal-binding site 984129001264 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 984129001265 active site 984129001266 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 984129001267 PLD-like domain; Region: PLDc_2; pfam13091 984129001268 putative homodimer interface [polypeptide binding]; other site 984129001269 putative active site [active] 984129001270 catalytic site [active] 984129001271 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 984129001272 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 984129001273 CAP-like domain; other site 984129001274 active site 984129001275 primary dimer interface [polypeptide binding]; other site 984129001276 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 984129001277 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 984129001278 BNR repeat-like domain; Region: BNR_2; pfam13088 984129001279 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 984129001280 Asp-box motif; other site 984129001281 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 984129001282 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 984129001283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984129001284 catalytic residue [active] 984129001285 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 984129001286 Predicted membrane protein [Function unknown]; Region: COG4325 984129001287 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 984129001288 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 984129001289 putative active site [active] 984129001290 putative PHP Thumb interface [polypeptide binding]; other site 984129001291 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 984129001292 generic binding surface II; other site 984129001293 generic binding surface I; other site 984129001294 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 984129001295 active site 984129001296 catalytic residues [active] 984129001297 metal binding site [ion binding]; metal-binding site 984129001298 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 984129001299 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 984129001300 FtsX-like permease family; Region: FtsX; pfam02687 984129001301 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 984129001302 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 984129001303 Walker A/P-loop; other site 984129001304 ATP binding site [chemical binding]; other site 984129001305 Q-loop/lid; other site 984129001306 ABC transporter signature motif; other site 984129001307 Walker B; other site 984129001308 D-loop; other site 984129001309 H-loop/switch region; other site 984129001310 lysine decarboxylase LdcC; Provisional; Region: PRK15399 984129001311 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 984129001312 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 984129001313 homodimer interface [polypeptide binding]; other site 984129001314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129001315 catalytic residue [active] 984129001316 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 984129001317 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 984129001318 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 984129001319 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 984129001320 lipoyl attachment site [posttranslational modification]; other site 984129001321 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 984129001322 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 984129001323 tetramer interface [polypeptide binding]; other site 984129001324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129001325 catalytic residue [active] 984129001326 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 984129001327 tetramer interface [polypeptide binding]; other site 984129001328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129001329 catalytic residue [active] 984129001330 Predicted helicase [General function prediction only]; Region: COG4889 984129001331 Predicted helicase [General function prediction only]; Region: COG4889 984129001332 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 984129001333 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 984129001334 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 984129001335 shikimate binding site; other site 984129001336 NAD(P) binding site [chemical binding]; other site 984129001337 pullulanase, type I; Region: pulA_typeI; TIGR02104 984129001338 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 984129001339 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 984129001340 Ca binding site [ion binding]; other site 984129001341 active site 984129001342 catalytic site [active] 984129001343 glycogen branching enzyme; Provisional; Region: PRK12313 984129001344 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 984129001345 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 984129001346 active site 984129001347 catalytic site [active] 984129001348 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 984129001349 phosphoglucomutase; Region: PLN02307 984129001350 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 984129001351 substrate binding site [chemical binding]; other site 984129001352 dimer interface [polypeptide binding]; other site 984129001353 active site 984129001354 metal binding site [ion binding]; metal-binding site 984129001355 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 984129001356 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 984129001357 ligand binding site; other site 984129001358 oligomer interface; other site 984129001359 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 984129001360 dimer interface [polypeptide binding]; other site 984129001361 N-terminal domain interface [polypeptide binding]; other site 984129001362 sulfate 1 binding site; other site 984129001363 glycogen synthase; Provisional; Region: glgA; PRK00654 984129001364 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 984129001365 ADP-binding pocket [chemical binding]; other site 984129001366 homodimer interface [polypeptide binding]; other site 984129001367 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 984129001368 homodimer interface [polypeptide binding]; other site 984129001369 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 984129001370 active site pocket [active] 984129001371 4-alpha-glucanotransferase; Provisional; Region: PRK14508 984129001372 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 984129001373 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 984129001374 dimer interface [polypeptide binding]; other site 984129001375 motif 1; other site 984129001376 active site 984129001377 motif 2; other site 984129001378 motif 3; other site 984129001379 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 984129001380 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984129001381 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129001382 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129001383 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 984129001384 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984129001385 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 984129001386 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129001387 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 984129001388 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 984129001389 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 984129001390 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 984129001391 nucleotide binding site [chemical binding]; other site 984129001392 substrate binding site [chemical binding]; other site 984129001393 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 984129001394 dimer interface [polypeptide binding]; other site 984129001395 putative threonine allosteric regulatory site; other site 984129001396 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 984129001397 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 984129001398 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 984129001399 homoserine kinase; Provisional; Region: PRK01212 984129001400 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984129001401 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 984129001402 threonine synthase; Validated; Region: PRK09225 984129001403 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 984129001404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129001405 catalytic residue [active] 984129001406 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 984129001407 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129001408 putative substrate translocation pore; other site 984129001409 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 984129001410 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 984129001411 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 984129001412 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 984129001413 putative active site [active] 984129001414 putative metal binding site [ion binding]; other site 984129001415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129001416 active site 984129001417 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 984129001418 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 984129001419 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129001420 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129001421 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 984129001422 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 984129001423 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984129001424 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 984129001425 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 984129001426 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 984129001427 putative substrate translocation pore; other site 984129001428 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 984129001429 Predicted membrane protein [Function unknown]; Region: COG4129 984129001430 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984129001431 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 984129001432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129001433 putative substrate translocation pore; other site 984129001434 ABC transporter ATPase component; Reviewed; Region: PRK11147 984129001435 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984129001436 Walker A/P-loop; other site 984129001437 ATP binding site [chemical binding]; other site 984129001438 Q-loop/lid; other site 984129001439 ABC transporter signature motif; other site 984129001440 Walker B; other site 984129001441 D-loop; other site 984129001442 H-loop/switch region; other site 984129001443 ABC transporter; Region: ABC_tran_2; pfam12848 984129001444 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984129001445 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 984129001446 putative substrate translocation pore; other site 984129001447 POT family; Region: PTR2; cl17359 984129001448 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 984129001449 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 984129001450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984129001451 active site 984129001452 HIGH motif; other site 984129001453 nucleotide binding site [chemical binding]; other site 984129001454 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 984129001455 KMSKS motif; other site 984129001456 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 984129001457 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 984129001458 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 984129001459 active site 984129001460 metal-binding site [ion binding] 984129001461 nucleotide-binding site [chemical binding]; other site 984129001462 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 984129001463 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 984129001464 Mg++ binding site [ion binding]; other site 984129001465 putative catalytic motif [active] 984129001466 putative substrate binding site [chemical binding]; other site 984129001467 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 984129001468 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129001469 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129001470 cell division protein FtsW; Region: ftsW; TIGR02614 984129001471 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 984129001472 putative active site [active] 984129001473 YdjC motif; other site 984129001474 Mg binding site [ion binding]; other site 984129001475 putative homodimer interface [polypeptide binding]; other site 984129001476 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 984129001477 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 984129001478 Ligand binding site; other site 984129001479 Putative Catalytic site; other site 984129001480 DXD motif; other site 984129001481 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 984129001482 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 984129001483 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 984129001484 oxidative damage protection protein; Provisional; Region: PRK05408 984129001485 DsrC like protein; Region: DsrC; pfam04358 984129001486 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 984129001487 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 984129001488 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129001489 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 984129001490 dimer interface [polypeptide binding]; other site 984129001491 N-terminal domain interface [polypeptide binding]; other site 984129001492 putative inner membrane peptidase; Provisional; Region: PRK11778 984129001493 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 984129001494 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 984129001495 tandem repeat interface [polypeptide binding]; other site 984129001496 oligomer interface [polypeptide binding]; other site 984129001497 active site residues [active] 984129001498 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 984129001499 DNA polymerase III subunit delta'; Validated; Region: PRK08485 984129001500 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 984129001501 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 984129001502 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 984129001503 dimer interface [polypeptide binding]; other site 984129001504 active site 984129001505 Schiff base residues; other site 984129001506 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 984129001507 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 984129001508 active site 984129001509 homotetramer interface [polypeptide binding]; other site 984129001510 homodimer interface [polypeptide binding]; other site 984129001511 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 984129001512 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 984129001513 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984129001514 active site 984129001515 HIGH motif; other site 984129001516 nucleotide binding site [chemical binding]; other site 984129001517 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 984129001518 KMSK motif region; other site 984129001519 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984129001520 tRNA binding surface [nucleotide binding]; other site 984129001521 anticodon binding site; other site 984129001522 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 984129001523 Organic solvent tolerance protein; Region: OstA_C; pfam04453 984129001524 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 984129001525 SurA N-terminal domain; Region: SurA_N; pfam09312 984129001526 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 984129001527 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 984129001528 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 984129001529 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 984129001530 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 984129001531 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 984129001532 active site 984129001533 metal binding site [ion binding]; metal-binding site 984129001534 Dehydroquinase class II; Region: DHquinase_II; pfam01220 984129001535 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 984129001536 trimer interface [polypeptide binding]; other site 984129001537 active site 984129001538 dimer interface [polypeptide binding]; other site 984129001539 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 984129001540 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 984129001541 carboxyltransferase (CT) interaction site; other site 984129001542 biotinylation site [posttranslational modification]; other site 984129001543 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 984129001544 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984129001545 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 984129001546 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 984129001547 Helix-turn-helix domain; Region: HTH_25; pfam13413 984129001548 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984129001549 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984129001550 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 984129001551 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 984129001552 motif 1; other site 984129001553 dimer interface [polypeptide binding]; other site 984129001554 active site 984129001555 motif 2; other site 984129001556 motif 3; other site 984129001557 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 984129001558 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 984129001559 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 984129001560 DHH family; Region: DHH; pfam01368 984129001561 DHHA1 domain; Region: DHHA1; pfam02272 984129001562 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 984129001563 Domain of unknown function DUF20; Region: UPF0118; pfam01594 984129001564 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 984129001565 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 984129001566 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 984129001567 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129001568 Predicted GTPases [General function prediction only]; Region: COG1162 984129001569 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 984129001570 RNA binding site [nucleotide binding]; other site 984129001571 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 984129001572 GTPase/Zn-binding domain interface [polypeptide binding]; other site 984129001573 GTP/Mg2+ binding site [chemical binding]; other site 984129001574 G4 box; other site 984129001575 G5 box; other site 984129001576 G1 box; other site 984129001577 Switch I region; other site 984129001578 G2 box; other site 984129001579 G3 box; other site 984129001580 Switch II region; other site 984129001581 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 984129001582 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 984129001583 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 984129001584 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 984129001585 ATP binding site [chemical binding]; other site 984129001586 Mg2+ binding site [ion binding]; other site 984129001587 G-X-G motif; other site 984129001588 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 984129001589 ATP binding site [chemical binding]; other site 984129001590 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 984129001591 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129001592 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129001593 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 984129001594 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129001595 putative substrate translocation pore; other site 984129001596 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 984129001597 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129001598 putative substrate translocation pore; other site 984129001599 thioredoxin reductase; Provisional; Region: PRK10262 984129001600 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 984129001601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129001602 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 984129001603 PLD-like domain; Region: PLDc_2; pfam13091 984129001604 putative active site [active] 984129001605 catalytic site [active] 984129001606 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 984129001607 PLD-like domain; Region: PLDc_2; pfam13091 984129001608 putative active site [active] 984129001609 putative catalytic site [active] 984129001610 phosphoglycolate phosphatase; Provisional; Region: PRK13222 984129001611 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984129001612 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 984129001613 motif II; other site 984129001614 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129001615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129001616 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 984129001617 putative effector binding pocket; other site 984129001618 dimerization interface [polypeptide binding]; other site 984129001619 MFS transport protein AraJ; Provisional; Region: PRK10091 984129001620 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 984129001621 putative substrate translocation pore; other site 984129001622 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 984129001623 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 984129001624 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 984129001625 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 984129001626 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984129001627 Zn2+ binding site [ion binding]; other site 984129001628 Mg2+ binding site [ion binding]; other site 984129001629 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 984129001630 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 984129001631 active site 984129001632 dimer interface [polypeptide binding]; other site 984129001633 catalytic nucleophile [active] 984129001634 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 984129001635 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 984129001636 putative substrate translocation pore; other site 984129001637 POT family; Region: PTR2; cl17359 984129001638 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984129001639 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 984129001640 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 984129001641 CoA binding domain; Region: CoA_binding; smart00881 984129001642 CoA-ligase; Region: Ligase_CoA; pfam00549 984129001643 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 984129001644 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 984129001645 CoA-ligase; Region: Ligase_CoA; pfam00549 984129001646 TIGR03546 family protein; Region: TIGR03546 984129001647 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129001648 tRNA dihydrouridine synthase A; Region: yjbN; TIGR00742 984129001649 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 984129001650 FMN binding site [chemical binding]; other site 984129001651 active site 984129001652 catalytic residues [active] 984129001653 substrate binding site [chemical binding]; other site 984129001654 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 984129001655 putative active site pocket [active] 984129001656 dimerization interface [polypeptide binding]; other site 984129001657 putative catalytic residue [active] 984129001658 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 984129001659 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 984129001660 ATP binding site [chemical binding]; other site 984129001661 Mg2+ binding site [ion binding]; other site 984129001662 G-X-G motif; other site 984129001663 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 984129001664 anchoring element; other site 984129001665 dimer interface [polypeptide binding]; other site 984129001666 ATP binding site [chemical binding]; other site 984129001667 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 984129001668 active site 984129001669 putative metal-binding site [ion binding]; other site 984129001670 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984129001671 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 984129001672 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 984129001673 active site 984129001674 multimer interface [polypeptide binding]; other site 984129001675 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 984129001676 predicted active site [active] 984129001677 catalytic triad [active] 984129001678 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 984129001679 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 984129001680 DNA binding site [nucleotide binding] 984129001681 catalytic residue [active] 984129001682 H2TH interface [polypeptide binding]; other site 984129001683 putative catalytic residues [active] 984129001684 turnover-facilitating residue; other site 984129001685 intercalation triad [nucleotide binding]; other site 984129001686 8OG recognition residue [nucleotide binding]; other site 984129001687 putative reading head residues; other site 984129001688 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 984129001689 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 984129001690 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 984129001691 AMP-binding enzyme; Region: AMP-binding; pfam00501 984129001692 acyl-activating enzyme (AAE) consensus motif; other site 984129001693 putative AMP binding site [chemical binding]; other site 984129001694 MraW methylase family; Region: Methyltransf_5; cl17771 984129001695 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 984129001696 Cell division protein FtsL; Region: FtsL; cl11433 984129001697 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 984129001698 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 984129001699 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 984129001700 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 984129001701 16S/18S rRNA binding site [nucleotide binding]; other site 984129001702 S13e-L30e interaction site [polypeptide binding]; other site 984129001703 25S rRNA binding site [nucleotide binding]; other site 984129001704 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 984129001705 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 984129001706 oligomer interface [polypeptide binding]; other site 984129001707 RNA binding site [nucleotide binding]; other site 984129001708 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 984129001709 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 984129001710 RNase E interface [polypeptide binding]; other site 984129001711 trimer interface [polypeptide binding]; other site 984129001712 active site 984129001713 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 984129001714 putative nucleic acid binding region [nucleotide binding]; other site 984129001715 G-X-X-G motif; other site 984129001716 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 984129001717 RNA binding site [nucleotide binding]; other site 984129001718 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 984129001719 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 984129001720 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 984129001721 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 984129001722 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 984129001723 ATP-binding site [chemical binding]; other site 984129001724 Sugar specificity; other site 984129001725 Pyrimidine base specificity; other site 984129001726 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 984129001727 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 984129001728 TRAM domain; Region: TRAM; pfam01938 984129001729 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 984129001730 S-adenosylmethionine binding site [chemical binding]; other site 984129001731 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 984129001732 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984129001733 nucleotide binding site [chemical binding]; other site 984129001734 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 984129001735 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 984129001736 nucleotide binding site [chemical binding]; other site 984129001737 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129001738 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129001739 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 984129001740 putative substrate translocation pore; other site 984129001741 enolase; Provisional; Region: eno; PRK00077 984129001742 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 984129001743 dimer interface [polypeptide binding]; other site 984129001744 metal binding site [ion binding]; metal-binding site 984129001745 substrate binding pocket [chemical binding]; other site 984129001746 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 984129001747 Septum formation initiator; Region: DivIC; cl17659 984129001748 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 984129001749 substrate binding site; other site 984129001750 dimer interface; other site 984129001751 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 984129001752 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 984129001753 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 984129001754 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984129001755 NAD(P) binding site [chemical binding]; other site 984129001756 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 984129001757 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 984129001758 substrate-cofactor binding pocket; other site 984129001759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129001760 catalytic residue [active] 984129001761 Transposase domain (DUF772); Region: DUF772; pfam05598 984129001762 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 984129001763 DDE superfamily endonuclease; Region: DDE_4; cl17710 984129001764 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129001765 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984129001766 Glyco_18 domain; Region: Glyco_18; smart00636 984129001767 active site 984129001768 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 984129001769 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 984129001770 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129001771 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 984129001772 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129001773 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 984129001774 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129001775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129001776 active site 984129001777 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 984129001778 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 984129001779 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 984129001780 putative active site [active] 984129001781 putative substrate binding site [chemical binding]; other site 984129001782 putative cosubstrate binding site; other site 984129001783 catalytic site [active] 984129001784 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 984129001785 putative substrate binding pocket [chemical binding]; other site 984129001786 trimer interface [polypeptide binding]; other site 984129001787 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 984129001788 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129001789 putative substrate translocation pore; other site 984129001790 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 984129001791 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984129001792 Zn2+ binding site [ion binding]; other site 984129001793 Mg2+ binding site [ion binding]; other site 984129001794 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 984129001795 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 984129001796 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 984129001797 heme binding site [chemical binding]; other site 984129001798 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 984129001799 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 984129001800 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 984129001801 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 984129001802 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 984129001803 putative substrate translocation pore; other site 984129001804 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984129001805 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 984129001806 active site 984129001807 catalytic site [active] 984129001808 metal binding site [ion binding]; metal-binding site 984129001809 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 984129001810 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129001811 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 984129001812 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 984129001813 Walker A/P-loop; other site 984129001814 ATP binding site [chemical binding]; other site 984129001815 Q-loop/lid; other site 984129001816 ABC transporter signature motif; other site 984129001817 Walker B; other site 984129001818 D-loop; other site 984129001819 H-loop/switch region; other site 984129001820 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 984129001821 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 984129001822 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 984129001823 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 984129001824 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 984129001825 Sulfate transporter family; Region: Sulfate_transp; pfam00916 984129001826 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 984129001827 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 984129001828 homotrimer interaction site [polypeptide binding]; other site 984129001829 putative active site [active] 984129001830 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 984129001831 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 984129001832 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984129001833 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 984129001834 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984129001835 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984129001836 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984129001837 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984129001838 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 984129001839 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 984129001840 PemK-like protein; Region: PemK; pfam02452 984129001841 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 984129001842 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 984129001843 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 984129001844 ATP binding site [chemical binding]; other site 984129001845 putative Mg++ binding site [ion binding]; other site 984129001846 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 984129001847 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 984129001848 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984129001849 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129001850 Walker A/P-loop; other site 984129001851 ATP binding site [chemical binding]; other site 984129001852 Q-loop/lid; other site 984129001853 ABC transporter signature motif; other site 984129001854 Walker B; other site 984129001855 D-loop; other site 984129001856 H-loop/switch region; other site 984129001857 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 984129001858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129001859 Walker A/P-loop; other site 984129001860 ATP binding site [chemical binding]; other site 984129001861 Q-loop/lid; other site 984129001862 ABC transporter signature motif; other site 984129001863 Walker B; other site 984129001864 D-loop; other site 984129001865 H-loop/switch region; other site 984129001866 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 984129001867 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 984129001868 ROK family; Region: ROK; pfam00480 984129001869 seryl-tRNA synthetase; Provisional; Region: PRK05431 984129001870 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 984129001871 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 984129001872 dimer interface [polypeptide binding]; other site 984129001873 active site 984129001874 motif 1; other site 984129001875 motif 2; other site 984129001876 motif 3; other site 984129001877 phosphoglyceromutase; Provisional; Region: PRK05434 984129001878 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 984129001879 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 984129001880 FAD binding domain; Region: FAD_binding_4; pfam01565 984129001881 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 984129001882 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 984129001883 active site 984129001884 catalytic motif [active] 984129001885 Zn binding site [ion binding]; other site 984129001886 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 984129001887 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 984129001888 active site 984129001889 dinuclear metal binding site [ion binding]; other site 984129001890 dimerization interface [polypeptide binding]; other site 984129001891 Predicted membrane protein [Function unknown]; Region: COG2860 984129001892 UPF0126 domain; Region: UPF0126; pfam03458 984129001893 UPF0126 domain; Region: UPF0126; pfam03458 984129001894 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 984129001895 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 984129001896 S-adenosylmethionine binding site [chemical binding]; other site 984129001897 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984129001898 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984129001899 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984129001900 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 984129001901 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 984129001902 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 984129001903 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 984129001904 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 984129001905 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 984129001906 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 984129001907 multifunctional aminopeptidase A; Provisional; Region: PRK00913 984129001908 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 984129001909 interface (dimer of trimers) [polypeptide binding]; other site 984129001910 Substrate-binding/catalytic site; other site 984129001911 Zn-binding sites [ion binding]; other site 984129001912 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 984129001913 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 984129001914 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 984129001915 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 984129001916 active site 984129001917 Thiamine pyrophosphokinase; Region: TPK; cd07995 984129001918 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 984129001919 active site 984129001920 dimerization interface [polypeptide binding]; other site 984129001921 thiamine binding site [chemical binding]; other site 984129001922 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 984129001923 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 984129001924 active site 984129001925 dimer interface [polypeptide binding]; other site 984129001926 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 984129001927 dimer interface [polypeptide binding]; other site 984129001928 active site 984129001929 Type II transport protein GspH; Region: GspH; pfam12019 984129001930 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 984129001931 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 984129001932 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 984129001933 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 984129001934 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984129001935 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 984129001936 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 984129001937 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 984129001938 putative transporter; Provisional; Region: PRK10504 984129001939 putative substrate translocation pore; other site 984129001940 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 984129001941 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 984129001942 Walker A motif; other site 984129001943 ATP binding site [chemical binding]; other site 984129001944 Walker B motif; other site 984129001945 arginine finger; other site 984129001946 Peptidase family M41; Region: Peptidase_M41; pfam01434 984129001947 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 984129001948 LPP20 lipoprotein; Region: LPP20; cl15824 984129001949 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 984129001950 DEAD/DEAH box helicase; Region: DEAD; pfam00270 984129001951 ATP binding site [chemical binding]; other site 984129001952 putative Mg++ binding site [ion binding]; other site 984129001953 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 984129001954 SEC-C motif; Region: SEC-C; pfam02810 984129001955 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 984129001956 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 984129001957 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 984129001958 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 984129001959 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 984129001960 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 984129001961 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 984129001962 putative substrate translocation pore; other site 984129001963 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 984129001964 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 984129001965 catalytic site [active] 984129001966 putative active site [active] 984129001967 putative substrate binding site [chemical binding]; other site 984129001968 HRDC domain; Region: HRDC; pfam00570 984129001969 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 984129001970 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 984129001971 GIY-YIG motif/motif A; other site 984129001972 active site 984129001973 catalytic site [active] 984129001974 putative DNA binding site [nucleotide binding]; other site 984129001975 metal binding site [ion binding]; metal-binding site 984129001976 UvrB/uvrC motif; Region: UVR; pfam02151 984129001977 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 984129001978 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; cl00474 984129001979 active site 984129001980 Uncharacterized conserved protein [Function unknown]; Region: COG2835 984129001981 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 984129001982 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 984129001983 Ligand binding site; other site 984129001984 oligomer interface; other site 984129001985 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 984129001986 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 984129001987 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 984129001988 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 984129001989 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 984129001990 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 984129001991 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 984129001992 dimer interface [polypeptide binding]; other site 984129001993 active site 984129001994 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 984129001995 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 984129001996 putative substrate translocation pore; other site 984129001997 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 984129001998 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 984129001999 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 984129002000 putative substrate translocation pore; other site 984129002001 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 984129002002 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 984129002003 helicase 45; Provisional; Region: PTZ00424 984129002004 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 984129002005 ATP binding site [chemical binding]; other site 984129002006 Mg++ binding site [ion binding]; other site 984129002007 motif III; other site 984129002008 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 984129002009 nucleotide binding region [chemical binding]; other site 984129002010 ATP-binding site [chemical binding]; other site 984129002011 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 984129002012 putative RNA binding site [nucleotide binding]; other site 984129002013 Guanylate kinase; Region: Guanylate_kin; pfam00625 984129002014 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 984129002015 catalytic site [active] 984129002016 G-X2-G-X-G-K; other site 984129002017 quinolinate synthetase; Provisional; Region: PRK09375 984129002018 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 984129002019 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 984129002020 dimerization interface [polypeptide binding]; other site 984129002021 active site 984129002022 L-aspartate oxidase; Provisional; Region: PRK09077 984129002023 L-aspartate oxidase; Provisional; Region: PRK06175 984129002024 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 984129002025 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 984129002026 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 984129002027 active site 984129002028 Chorismate mutase type II; Region: CM_2; smart00830 984129002029 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 984129002030 catalytic residues [active] 984129002031 dimer interface [polypeptide binding]; other site 984129002032 Protein of unknown function (DUF819); Region: DUF819; cl02317 984129002033 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 984129002034 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 984129002035 active site 984129002036 Putative serine esterase (DUF676); Region: DUF676; pfam05057 984129002037 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 984129002038 putative carbohydrate kinase; Provisional; Region: PRK10565 984129002039 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 984129002040 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 984129002041 putative substrate binding site [chemical binding]; other site 984129002042 putative ATP binding site [chemical binding]; other site 984129002043 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 984129002044 RNA binding surface [nucleotide binding]; other site 984129002045 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 984129002046 OstA-like protein; Region: OstA; cl00844 984129002047 Organic solvent tolerance protein; Region: OstA_C; pfam04453 984129002048 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129002049 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129002050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129002051 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129002052 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129002053 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129002054 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129002055 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 984129002056 Fusaric acid resistance protein family; Region: FUSC; pfam04632 984129002057 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984129002058 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 984129002059 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984129002060 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129002061 Transcriptional regulator [Transcription]; Region: IclR; COG1414 984129002062 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 984129002063 non-specific DNA interactions [nucleotide binding]; other site 984129002064 DNA binding site [nucleotide binding] 984129002065 sequence specific DNA binding site [nucleotide binding]; other site 984129002066 putative cAMP binding site [chemical binding]; other site 984129002067 Bacterial transcriptional regulator; Region: IclR; pfam01614 984129002068 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 984129002069 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 984129002070 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 984129002071 Radical SAM superfamily; Region: Radical_SAM; pfam04055 984129002072 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 984129002073 FeS/SAM binding site; other site 984129002074 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 984129002075 DNA-binding site [nucleotide binding]; DNA binding site 984129002076 RNA-binding motif; other site 984129002077 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 984129002078 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 984129002079 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 984129002080 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 984129002081 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 984129002082 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 984129002083 active site 984129002084 tetramer interface; other site 984129002085 acetyl-CoA synthetase; Provisional; Region: PRK00174 984129002086 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 984129002087 active site 984129002088 CoA binding site [chemical binding]; other site 984129002089 acyl-activating enzyme (AAE) consensus motif; other site 984129002090 AMP binding site [chemical binding]; other site 984129002091 acetate binding site [chemical binding]; other site 984129002092 EamA-like transporter family; Region: EamA; pfam00892 984129002093 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 984129002094 EamA-like transporter family; Region: EamA; pfam00892 984129002095 recombination protein F; Reviewed; Region: recF; PRK00064 984129002096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002097 Walker A/P-loop; other site 984129002098 ATP binding site [chemical binding]; other site 984129002099 Q-loop/lid; other site 984129002100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002101 ABC transporter signature motif; other site 984129002102 Walker B; other site 984129002103 D-loop; other site 984129002104 H-loop/switch region; other site 984129002105 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 984129002106 active site 984129002107 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 984129002108 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 984129002109 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 984129002110 dimer interface [polypeptide binding]; other site 984129002111 conserved gate region; other site 984129002112 putative PBP binding loops; other site 984129002113 ABC-ATPase subunit interface; other site 984129002114 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 984129002115 dimer interface [polypeptide binding]; other site 984129002116 conserved gate region; other site 984129002117 putative PBP binding loops; other site 984129002118 ABC-ATPase subunit interface; other site 984129002119 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 984129002120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002121 Walker A/P-loop; other site 984129002122 ATP binding site [chemical binding]; other site 984129002123 Q-loop/lid; other site 984129002124 ABC transporter signature motif; other site 984129002125 Walker B; other site 984129002126 D-loop; other site 984129002127 H-loop/switch region; other site 984129002128 TOBE domain; Region: TOBE_2; pfam08402 984129002129 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002130 POT family; Region: PTR2; cl17359 984129002131 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 984129002132 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984129002133 Protein of unknown function (DUF475); Region: DUF475; cl17481 984129002134 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 984129002135 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 984129002136 dimer interface [polypeptide binding]; other site 984129002137 substrate binding pocket (H-site) [chemical binding]; other site 984129002138 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 984129002139 putative N-terminal domain interface [polypeptide binding]; other site 984129002140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 984129002141 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 984129002142 active site 984129002143 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129002144 dimer interface [polypeptide binding]; other site 984129002145 substrate binding site [chemical binding]; other site 984129002146 catalytic residues [active] 984129002147 amino acid transporter; Region: 2A0306; TIGR00909 984129002148 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 984129002149 Prephenate dehydratase; Region: PDT; pfam00800 984129002150 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 984129002151 putative L-Phe binding site [chemical binding]; other site 984129002152 Protein of unknown function DUF45; Region: DUF45; pfam01863 984129002153 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 984129002154 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 984129002155 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 984129002156 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 984129002157 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 984129002158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129002159 catalytic residue [active] 984129002160 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 984129002161 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 984129002162 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 984129002163 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 984129002164 active site 984129002165 (T/H)XGH motif; other site 984129002166 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 984129002167 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 984129002168 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 984129002169 ligand binding site [chemical binding]; other site 984129002170 CRISPR/Cas system-associated protein Cas9; Region: Csx12; cd09704 984129002171 CRISPR-associated protein Cas9/Csx12, subtype II-B/NMENI; Region: cas_csx12; TIGR03031 984129002172 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 984129002173 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 984129002174 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 984129002175 FeS/SAM binding site; other site 984129002176 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 984129002177 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129002178 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 984129002179 active site 984129002180 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984129002181 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 984129002182 active site 984129002183 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 984129002184 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 984129002185 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 984129002186 BCCT family transporter; Region: BCCT; pfam02028 984129002187 TspO/MBR family; Region: TspO_MBR; pfam03073 984129002188 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 984129002189 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 984129002190 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 984129002191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129002192 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 984129002193 putative substrate translocation pore; other site 984129002194 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984129002195 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 984129002196 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 984129002197 catalytic residues [active] 984129002198 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984129002199 epoxyqueuosine reductase; Region: TIGR00276 984129002200 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 984129002201 Oligomerisation domain; Region: Oligomerisation; pfam02410 984129002202 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 984129002203 Part of AAA domain; Region: AAA_19; pfam13245 984129002204 Family description; Region: UvrD_C_2; pfam13538 984129002205 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 984129002206 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 984129002207 motif 1; other site 984129002208 active site 984129002209 motif 2; other site 984129002210 motif 3; other site 984129002211 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984129002212 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 984129002213 potential frameshift: common BLAST hit: gi|118497375|ref|YP_898425.1| cytosol aminopeptidase 984129002214 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 984129002215 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 984129002216 interface (dimer of trimers) [polypeptide binding]; other site 984129002217 Substrate-binding/catalytic site; other site 984129002218 Zn-binding sites [ion binding]; other site 984129002219 transaldolase-like protein; Provisional; Region: PTZ00411 984129002220 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 984129002221 active site 984129002222 dimer interface [polypeptide binding]; other site 984129002223 catalytic residue [active] 984129002224 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 984129002225 Isochorismatase family; Region: Isochorismatase; pfam00857 984129002226 catalytic triad [active] 984129002227 conserved cis-peptide bond; other site 984129002228 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129002229 Isochorismatase family; Region: Isochorismatase; pfam00857 984129002230 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; cl00220 984129002231 catalytic triad [active] 984129002232 conserved cis-peptide bond; other site 984129002233 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 984129002234 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 984129002235 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 984129002236 Part of AAA domain; Region: AAA_19; pfam13245 984129002237 AAA domain; Region: AAA_14; pfam13173 984129002238 Family description; Region: UvrD_C_2; pfam13538 984129002239 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 984129002240 S1 domain; Region: S1_2; pfam13509 984129002241 S1 domain; Region: S1_2; pfam13509 984129002242 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 984129002243 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 984129002244 active site residue [active] 984129002245 recombination associated protein; Reviewed; Region: rdgC; PRK00321 984129002246 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 984129002247 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 984129002248 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 984129002249 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984129002250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002251 Walker A/P-loop; other site 984129002252 ATP binding site [chemical binding]; other site 984129002253 Q-loop/lid; other site 984129002254 ABC transporter signature motif; other site 984129002255 Walker B; other site 984129002256 D-loop; other site 984129002257 H-loop/switch region; other site 984129002258 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984129002259 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002260 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 984129002261 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129002262 HipA N-terminal domain; Region: couple_hipA; TIGR03071 984129002263 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 984129002264 HipA-like N-terminal domain; Region: HipA_N; pfam07805 984129002265 HipA-like C-terminal domain; Region: HipA_C; pfam07804 984129002266 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 984129002267 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 984129002268 non-specific DNA binding site [nucleotide binding]; other site 984129002269 salt bridge; other site 984129002270 sequence-specific DNA binding site [nucleotide binding]; other site 984129002271 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 984129002272 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 984129002273 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 984129002274 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 984129002275 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 984129002276 S-adenosylmethionine binding site [chemical binding]; other site 984129002277 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 984129002278 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 984129002279 putative active site [active] 984129002280 substrate binding site [chemical binding]; other site 984129002281 putative cosubstrate binding site; other site 984129002282 catalytic site [active] 984129002283 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 984129002284 substrate binding site [chemical binding]; other site 984129002285 glutathione synthetase; Provisional; Region: PRK05246 984129002286 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 984129002287 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 984129002288 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 984129002289 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 984129002290 inhibitor-cofactor binding pocket; inhibition site 984129002291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129002292 catalytic residue [active] 984129002293 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 984129002294 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 984129002295 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 984129002296 classical (c) SDRs; Region: SDR_c; cd05233 984129002297 NAD(P) binding site [chemical binding]; other site 984129002298 active site 984129002299 acetoacetate decarboxylase; Provisional; Region: PRK02265 984129002300 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 984129002301 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 984129002302 putative substrate translocation pore; other site 984129002303 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 984129002304 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984129002305 nucleotide binding site [chemical binding]; other site 984129002306 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 984129002307 putative DNA binding site [nucleotide binding]; other site 984129002308 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 984129002309 putative Zn2+ binding site [ion binding]; other site 984129002310 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 984129002311 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 984129002312 AAA domain; Region: AAA_26; pfam13500 984129002313 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 984129002314 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 984129002315 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129002316 catalytic residue [active] 984129002317 biotin synthase; Region: bioB; TIGR00433 984129002318 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 984129002319 FeS/SAM binding site; other site 984129002320 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 984129002321 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 984129002322 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 984129002323 inhibitor-cofactor binding pocket; inhibition site 984129002324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129002325 catalytic residue [active] 984129002326 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 984129002327 active site 2 [active] 984129002328 active site 1 [active] 984129002329 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 984129002330 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 984129002331 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 984129002332 catalytic center binding site [active] 984129002333 ATP binding site [chemical binding]; other site 984129002334 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 984129002335 dihydropteroate synthase; Region: DHPS; TIGR01496 984129002336 substrate binding pocket [chemical binding]; other site 984129002337 dimer interface [polypeptide binding]; other site 984129002338 inhibitor binding site; inhibition site 984129002339 Dihydroneopterin aldolase; Region: FolB; smart00905 984129002340 active site 984129002341 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 984129002342 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984129002343 acyl-activating enzyme (AAE) consensus motif; other site 984129002344 AMP binding site [chemical binding]; other site 984129002345 active site 984129002346 CoA binding site [chemical binding]; other site 984129002347 aminodeoxychorismate synthase; Provisional; Region: PRK07508 984129002348 chorismate binding enzyme; Region: Chorismate_bind; cl10555 984129002349 Aminotransferase class IV; Region: Aminotran_4; pfam01063 984129002350 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 984129002351 substrate-cofactor binding pocket; other site 984129002352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129002353 catalytic residue [active] 984129002354 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 984129002355 Glutamine amidotransferase class-I; Region: GATase; pfam00117 984129002356 glutamine binding [chemical binding]; other site 984129002357 catalytic triad [active] 984129002358 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984129002359 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 984129002360 active site 984129002361 catalytic tetrad [active] 984129002362 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 984129002363 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 984129002364 active site 984129002365 catalytic tetrad [active] 984129002366 Predicted amidohydrolase [General function prediction only]; Region: COG0388 984129002367 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 984129002368 active site 984129002369 catalytic triad [active] 984129002370 dimer interface [polypeptide binding]; other site 984129002371 Uncharacterized conserved protein [Function unknown]; Region: COG1434 984129002372 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 984129002373 putative active site [active] 984129002374 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 984129002375 GTP cyclohydrolase I; Provisional; Region: PLN03044 984129002376 active site 984129002377 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 984129002378 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 984129002379 ATP binding site [chemical binding]; other site 984129002380 Mg++ binding site [ion binding]; other site 984129002381 motif III; other site 984129002382 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 984129002383 nucleotide binding region [chemical binding]; other site 984129002384 ATP-binding site [chemical binding]; other site 984129002385 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 984129002386 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 984129002387 putative substrate translocation pore; other site 984129002388 POT family; Region: PTR2; cl17359 984129002389 Uncharacterized conserved protein [Function unknown]; Region: COG0393 984129002390 glutathione reductase; Validated; Region: PRK06116 984129002391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129002392 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984129002393 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 984129002394 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 984129002395 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 984129002396 AAA domain; Region: AAA_33; pfam13671 984129002397 Walker A motif; other site 984129002398 ATP binding site [chemical binding]; other site 984129002399 Walker B motif; other site 984129002400 Nuclease-related domain; Region: NERD; pfam08378 984129002401 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 984129002402 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 984129002403 putative active site [active] 984129002404 putative catalytic site [active] 984129002405 putative DNA binding site [nucleotide binding]; other site 984129002406 putative phosphate binding site [ion binding]; other site 984129002407 metal binding site A [ion binding]; metal-binding site 984129002408 putative AP binding site [nucleotide binding]; other site 984129002409 putative metal binding site B [ion binding]; other site 984129002410 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 984129002411 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 984129002412 active site 984129002413 Zn binding site [ion binding]; other site 984129002414 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 984129002415 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 984129002416 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 984129002417 potential catalytic triad [active] 984129002418 conserved cys residue [active] 984129002419 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 984129002420 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 984129002421 signal recognition particle protein; Provisional; Region: PRK10867 984129002422 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 984129002423 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 984129002424 P loop; other site 984129002425 GTP binding site [chemical binding]; other site 984129002426 Signal peptide binding domain; Region: SRP_SPB; pfam02978 984129002427 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984129002428 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 984129002429 rRNA binding site [nucleotide binding]; other site 984129002430 predicted 30S ribosome binding site; other site 984129002431 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 984129002432 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 984129002433 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 984129002434 TrkA-N domain; Region: TrkA_N; pfam02254 984129002435 TrkA-N domain; Region: TrkA_N; pfam02254 984129002436 TrkA-C domain; Region: TrkA_C; pfam02080 984129002437 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 984129002438 Transcriptional regulator; Region: Rrf2; pfam02082 984129002439 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 984129002440 putative ABC transporter; Region: ycf24; CHL00085 984129002441 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 984129002442 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 984129002443 Walker A/P-loop; other site 984129002444 ATP binding site [chemical binding]; other site 984129002445 Q-loop/lid; other site 984129002446 ABC transporter signature motif; other site 984129002447 Walker B; other site 984129002448 D-loop; other site 984129002449 H-loop/switch region; other site 984129002450 FeS assembly protein SufD; Region: sufD; TIGR01981 984129002451 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 984129002452 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 984129002453 Amidinotransferase; Region: Amidinotransf; cl12043 984129002454 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 984129002455 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984129002456 catalytic residues [active] 984129002457 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 984129002458 Transcriptional regulators [Transcription]; Region: MarR; COG1846 984129002459 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 984129002460 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 984129002461 hypothetical protein; Provisional; Region: PRK07505 984129002462 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 984129002463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129002464 catalytic residue [active] 984129002465 PAS domain; Region: PAS_9; pfam13426 984129002466 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 984129002467 active site 984129002468 8-oxo-dGMP binding site [chemical binding]; other site 984129002469 nudix motif; other site 984129002470 metal binding site [ion binding]; metal-binding site 984129002471 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 984129002472 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 984129002473 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 984129002474 Sel1 repeat; Region: Sel1; pfam08238 984129002475 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 984129002476 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 984129002477 Transglutaminase/protease-like homologues; Region: TGc; smart00460 984129002478 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 984129002479 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 984129002480 HIGH motif; other site 984129002481 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 984129002482 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 984129002483 active site 984129002484 KMSKS motif; other site 984129002485 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 984129002486 tRNA binding surface [nucleotide binding]; other site 984129002487 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 984129002488 Lipopolysaccharide-assembly; Region: LptE; cl01125 984129002489 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984129002490 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984129002491 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 984129002492 trimer interface [polypeptide binding]; other site 984129002493 active site 984129002494 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 984129002495 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 984129002496 Walker A motif; other site 984129002497 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129002498 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 984129002499 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 984129002500 putative active site [active] 984129002501 catalytic site [active] 984129002502 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 984129002503 putative active site [active] 984129002504 catalytic site [active] 984129002505 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 984129002506 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 984129002507 putative active site [active] 984129002508 catalytic site [active] 984129002509 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 984129002510 putative active site [active] 984129002511 catalytic site [active] 984129002512 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 984129002513 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 984129002514 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 984129002515 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 984129002516 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984129002517 metal binding site 2 [ion binding]; metal-binding site 984129002518 putative DNA binding helix; other site 984129002519 metal binding site 1 [ion binding]; metal-binding site 984129002520 dimer interface [polypeptide binding]; other site 984129002521 structural Zn2+ binding site [ion binding]; other site 984129002522 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 984129002523 CAS motifs; other site 984129002524 active site 984129002525 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 984129002526 Transposase domain (DUF772); Region: DUF772; pfam05598 984129002527 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 984129002528 DDE superfamily endonuclease; Region: DDE_4; cl17710 984129002529 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002530 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 984129002531 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 984129002532 putative tRNA-binding site [nucleotide binding]; other site 984129002533 B3/4 domain; Region: B3_4; pfam03483 984129002534 tRNA synthetase B5 domain; Region: B5; smart00874 984129002535 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 984129002536 dimer interface [polypeptide binding]; other site 984129002537 motif 1; other site 984129002538 motif 3; other site 984129002539 motif 2; other site 984129002540 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 984129002541 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 984129002542 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 984129002543 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 984129002544 dimer interface [polypeptide binding]; other site 984129002545 motif 1; other site 984129002546 active site 984129002547 motif 2; other site 984129002548 motif 3; other site 984129002549 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 984129002550 EamA-like transporter family; Region: EamA; pfam00892 984129002551 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 984129002552 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 984129002553 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 984129002554 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 984129002555 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 984129002556 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 984129002557 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 984129002558 putative active site [active] 984129002559 putative catalytic site [active] 984129002560 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 984129002561 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 984129002562 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 984129002563 mannonate dehydratase; Provisional; Region: PRK03906 984129002564 mannonate dehydratase; Region: uxuA; TIGR00695 984129002565 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 984129002566 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 984129002567 substrate binding site [chemical binding]; other site 984129002568 ATP binding site [chemical binding]; other site 984129002569 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 984129002570 active site 984129002571 intersubunit interface [polypeptide binding]; other site 984129002572 catalytic residue [active] 984129002573 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 984129002574 glucuronate isomerase; Reviewed; Region: PRK02925 984129002575 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 984129002576 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 984129002577 putative substrate translocation pore; other site 984129002578 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 984129002579 Family of unknown function (DUF706); Region: DUF706; pfam05153 984129002580 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 984129002581 MFS/sugar transport protein; Region: MFS_2; pfam13347 984129002582 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 984129002583 catalytic motif [active] 984129002584 Catalytic residue [active] 984129002585 Aspartyl protease; Region: Asp_protease_2; pfam13650 984129002586 inhibitor binding site; inhibition site 984129002587 catalytic motif [active] 984129002588 Catalytic residue [active] 984129002589 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 984129002590 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 984129002591 non-specific DNA binding site [nucleotide binding]; other site 984129002592 salt bridge; other site 984129002593 sequence-specific DNA binding site [nucleotide binding]; other site 984129002594 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 984129002595 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 984129002596 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 984129002597 Walker A motif; other site 984129002598 ATP binding site [chemical binding]; other site 984129002599 Walker B motif; other site 984129002600 arginine finger; other site 984129002601 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 984129002602 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 984129002603 classical (c) SDRs; Region: SDR_c; cd05233 984129002604 NAD(P) binding site [chemical binding]; other site 984129002605 active site 984129002606 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 984129002607 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 984129002608 active site 984129002609 oxyanion hole [active] 984129002610 catalytic triad [active] 984129002611 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002612 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 984129002613 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 984129002614 putative active site pocket [active] 984129002615 dimerization interface [polypeptide binding]; other site 984129002616 putative catalytic residue [active] 984129002617 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 984129002618 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 984129002619 TPP-binding site; other site 984129002620 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 984129002621 PYR/PP interface [polypeptide binding]; other site 984129002622 dimer interface [polypeptide binding]; other site 984129002623 TPP binding site [chemical binding]; other site 984129002624 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984129002625 GMP synthase; Reviewed; Region: guaA; PRK00074 984129002626 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 984129002627 AMP/PPi binding site [chemical binding]; other site 984129002628 candidate oxyanion hole; other site 984129002629 catalytic triad [active] 984129002630 potential glutamine specificity residues [chemical binding]; other site 984129002631 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 984129002632 ATP Binding subdomain [chemical binding]; other site 984129002633 Ligand Binding sites [chemical binding]; other site 984129002634 Dimerization subdomain; other site 984129002635 amino acid transporter; Region: 2A0306; TIGR00909 984129002636 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 984129002637 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 984129002638 dimerization interface 3.5A [polypeptide binding]; other site 984129002639 active site 984129002640 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 984129002641 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 984129002642 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 984129002643 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 984129002644 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 984129002645 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 984129002646 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 984129002647 Walker A/P-loop; other site 984129002648 ATP binding site [chemical binding]; other site 984129002649 Q-loop/lid; other site 984129002650 ABC transporter signature motif; other site 984129002651 Walker B; other site 984129002652 D-loop; other site 984129002653 H-loop/switch region; other site 984129002654 OstA-like protein; Region: OstA; cl00844 984129002655 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 984129002656 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 984129002657 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 984129002658 active site 984129002659 motif I; other site 984129002660 motif II; other site 984129002661 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 984129002662 dimer interface [polypeptide binding]; other site 984129002663 substrate binding site [chemical binding]; other site 984129002664 metal binding sites [ion binding]; metal-binding site 984129002665 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 984129002666 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984129002667 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 984129002668 Protein of unknown function (DUF493); Region: DUF493; pfam04359 984129002669 lipoate-protein ligase B; Provisional; Region: PRK14342 984129002670 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 984129002671 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 984129002672 alpha-glucosidase; Provisional; Region: PRK10426 984129002673 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 984129002674 putative active site [active] 984129002675 putative catalytic site [active] 984129002676 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002677 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 984129002678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129002679 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 984129002680 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 984129002681 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 984129002682 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 984129002683 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984129002684 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 984129002685 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 984129002686 DNA binding residues [nucleotide binding] 984129002687 DNA primase, catalytic core; Region: dnaG; TIGR01391 984129002688 CHC2 zinc finger; Region: zf-CHC2; pfam01807 984129002689 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 984129002690 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 984129002691 active site 984129002692 metal binding site [ion binding]; metal-binding site 984129002693 interdomain interaction site; other site 984129002694 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 984129002695 Yqey-like protein; Region: YqeY; pfam09424 984129002696 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 984129002697 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 984129002698 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 984129002699 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984129002700 catalytic residue [active] 984129002701 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 984129002702 active site 984129002703 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 984129002704 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 984129002705 Ligand Binding Site [chemical binding]; other site 984129002706 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 984129002707 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 984129002708 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984129002709 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984129002710 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984129002711 substrate binding pocket [chemical binding]; other site 984129002712 chain length determination region; other site 984129002713 substrate-Mg2+ binding site; other site 984129002714 catalytic residues [active] 984129002715 aspartate-rich region 1; other site 984129002716 active site lid residues [active] 984129002717 aspartate-rich region 2; other site 984129002718 PQ loop repeat; Region: PQ-loop; pfam04193 984129002719 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 984129002720 ligand-binding site [chemical binding]; other site 984129002721 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 984129002722 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 984129002723 CysD dimerization site [polypeptide binding]; other site 984129002724 G1 box; other site 984129002725 putative GEF interaction site [polypeptide binding]; other site 984129002726 GTP/Mg2+ binding site [chemical binding]; other site 984129002727 Switch I region; other site 984129002728 G2 box; other site 984129002729 G3 box; other site 984129002730 Switch II region; other site 984129002731 G4 box; other site 984129002732 G5 box; other site 984129002733 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 984129002734 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 984129002735 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 984129002736 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 984129002737 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 984129002738 Active Sites [active] 984129002739 sulfotransferase; Region: PLN02164 984129002740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002741 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; cd01983 984129002742 Walker A/P-loop; other site 984129002743 ATP binding site [chemical binding]; other site 984129002744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129002745 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 984129002746 Walker A/P-loop; other site 984129002747 ATP binding site [chemical binding]; other site 984129002748 Q-loop/lid; other site 984129002749 ABC transporter signature motif; other site 984129002750 Walker B; other site 984129002751 D-loop; other site 984129002752 H-loop/switch region; other site 984129002753 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 984129002754 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 984129002755 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 984129002756 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 984129002757 Ligand Binding Site [chemical binding]; other site 984129002758 Molecular Tunnel; other site 984129002759 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 984129002760 active site 984129002761 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 984129002762 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 984129002763 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 984129002764 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 984129002765 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 984129002766 Coenzyme A binding pocket [chemical binding]; other site 984129002767 preprotein translocase subunit SecA; Validated; Region: secA; CHL00122 984129002768 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 984129002769 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 984129002770 RNA binding surface [nucleotide binding]; other site 984129002771 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 984129002772 probable active site [active] 984129002773 Tetratricopeptide repeat; Region: TPR_12; pfam13424 984129002774 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 984129002775 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 984129002776 FeS/SAM binding site; other site 984129002777 replicative DNA helicase; Region: DnaB; TIGR00665 984129002778 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 984129002779 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 984129002780 Walker A motif; other site 984129002781 ATP binding site [chemical binding]; other site 984129002782 Walker B motif; other site 984129002783 DNA binding loops [nucleotide binding] 984129002784 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 984129002785 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 984129002786 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 984129002787 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 984129002788 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 984129002789 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 984129002790 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 984129002791 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 984129002792 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 984129002793 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129002794 catalytic residue [active] 984129002795 cytidylate kinase; Provisional; Region: cmk; PRK00023 984129002796 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 984129002797 CMP-binding site; other site 984129002798 The sites determining sugar specificity; other site 984129002799 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 984129002800 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 984129002801 putative NAD(P) binding site [chemical binding]; other site 984129002802 homodimer interface [polypeptide binding]; other site 984129002803 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 984129002804 catalytic triad [active] 984129002805 dimer interface [polypeptide binding]; other site 984129002806 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 984129002807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129002808 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 984129002809 dimerization interface [polypeptide binding]; other site 984129002810 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129002811 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 984129002812 putative homodimer interface [polypeptide binding]; other site 984129002813 putative homotetramer interface [polypeptide binding]; other site 984129002814 putative allosteric switch controlling residues; other site 984129002815 putative metal binding site [ion binding]; other site 984129002816 putative homodimer-homodimer interface [polypeptide binding]; other site 984129002817 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 984129002818 aldehyde dehydrogenase family 7 member; Region: PLN02315 984129002819 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 984129002820 tetrameric interface [polypeptide binding]; other site 984129002821 NAD binding site [chemical binding]; other site 984129002822 catalytic residues [active] 984129002823 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 984129002824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129002825 NAD(P) binding site [chemical binding]; other site 984129002826 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129002827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 984129002828 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 984129002829 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 984129002830 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 984129002831 active site 984129002832 catalytic site [active] 984129002833 substrate binding site [chemical binding]; other site 984129002834 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 984129002835 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 984129002836 PhnA protein; Region: PhnA; pfam03831 984129002837 peroxidase; Provisional; Region: PRK15000 984129002838 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 984129002839 dimer interface [polypeptide binding]; other site 984129002840 decamer (pentamer of dimers) interface [polypeptide binding]; other site 984129002841 catalytic triad [active] 984129002842 peroxidatic and resolving cysteines [active] 984129002843 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 984129002844 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 984129002845 motif II; other site 984129002846 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 984129002847 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 984129002848 putative ATP binding site [chemical binding]; other site 984129002849 putative substrate interface [chemical binding]; other site 984129002850 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 984129002851 N-acetyl-D-glucosamine binding site [chemical binding]; other site 984129002852 catalytic residue [active] 984129002853 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 984129002854 diiron binding motif [ion binding]; other site 984129002855 malate dehydrogenase; Reviewed; Region: PRK06223 984129002856 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 984129002857 NAD(P) binding site [chemical binding]; other site 984129002858 dimer interface [polypeptide binding]; other site 984129002859 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984129002860 substrate binding site [chemical binding]; other site 984129002861 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 984129002862 Class I ribonucleotide reductase; Region: RNR_I; cd01679 984129002863 active site 984129002864 dimer interface [polypeptide binding]; other site 984129002865 catalytic residues [active] 984129002866 effector binding site; other site 984129002867 R2 peptide binding site; other site 984129002868 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 984129002869 GSH binding site [chemical binding]; other site 984129002870 catalytic residues [active] 984129002871 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional; Region: PRK12759 984129002872 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 984129002873 GSH binding site [chemical binding]; other site 984129002874 catalytic residues [active] 984129002875 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 984129002876 dimer interface [polypeptide binding]; other site 984129002877 putative radical transfer pathway; other site 984129002878 diiron center [ion binding]; other site 984129002879 tyrosyl radical; other site 984129002880 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 984129002881 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984129002882 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984129002883 ABC transporter; Region: ABC_tran_2; pfam12848 984129002884 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984129002885 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 984129002886 DJ-1 family protein; Region: not_thiJ; TIGR01383 984129002887 conserved cys residue [active] 984129002888 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 984129002889 active site 984129002890 DNA polymerase IV; Validated; Region: PRK02406 984129002891 DNA binding site [nucleotide binding] 984129002892 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 984129002893 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 984129002894 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 984129002895 FMN binding site [chemical binding]; other site 984129002896 active site 984129002897 catalytic residues [active] 984129002898 substrate binding site [chemical binding]; other site 984129002899 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 984129002900 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 984129002901 S-adenosylmethionine binding site [chemical binding]; other site 984129002902 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 984129002903 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 984129002904 dimer interface [polypeptide binding]; other site 984129002905 active site 984129002906 metal binding site [ion binding]; metal-binding site 984129002907 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 984129002908 FAD binding domain; Region: FAD_binding_4; pfam01565 984129002909 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 984129002910 Cysteine-rich domain; Region: CCG; pfam02754 984129002911 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 984129002912 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 984129002913 phosphate binding site [ion binding]; other site 984129002914 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 984129002915 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 984129002916 active site 984129002917 HIGH motif; other site 984129002918 dimer interface [polypeptide binding]; other site 984129002919 KMSKS motif; other site 984129002920 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 984129002921 RNA binding surface [nucleotide binding]; other site 984129002922 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 984129002923 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 984129002924 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 984129002925 active site 984129002926 HslU subunit interaction site [polypeptide binding]; other site 984129002927 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 984129002928 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 984129002929 Walker A motif; other site 984129002930 ATP binding site [chemical binding]; other site 984129002931 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 984129002932 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984129002933 potential frameshift: common BLAST hit: gi|156502381|ref|YP_001428446.1| amino acid transporter 984129002934 POT family; Region: PTR2; cl17359 984129002935 Ion channel; Region: Ion_trans_2; pfam07885 984129002936 TrkA-N domain; Region: TrkA_N; pfam02254 984129002937 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 984129002938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129002939 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984129002940 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 984129002941 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 984129002942 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 984129002943 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 984129002944 dimerization domain [polypeptide binding]; other site 984129002945 dimer interface [polypeptide binding]; other site 984129002946 catalytic residues [active] 984129002947 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984129002948 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 984129002949 putative active site [active] 984129002950 catalytic residue [active] 984129002951 GTP-binding protein YchF; Reviewed; Region: PRK09601 984129002952 YchF GTPase; Region: YchF; cd01900 984129002953 G1 box; other site 984129002954 GTP/Mg2+ binding site [chemical binding]; other site 984129002955 Switch I region; other site 984129002956 G2 box; other site 984129002957 Switch II region; other site 984129002958 G3 box; other site 984129002959 G4 box; other site 984129002960 G5 box; other site 984129002961 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 984129002962 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 984129002963 Domain of unknown function DUF21; Region: DUF21; pfam01595 984129002964 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 984129002965 Transporter associated domain; Region: CorC_HlyC; pfam03471 984129002966 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 984129002967 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 984129002968 5S rRNA interface [nucleotide binding]; other site 984129002969 CTC domain interface [polypeptide binding]; other site 984129002970 L16 interface [polypeptide binding]; other site 984129002971 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 984129002972 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 984129002973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129002974 active site 984129002975 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 984129002976 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 984129002977 putative active site [active] 984129002978 Zn binding site [ion binding]; other site 984129002979 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 984129002980 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129002981 putative substrate translocation pore; other site 984129002982 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 984129002983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129002984 putative substrate translocation pore; other site 984129002985 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 984129002986 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984129002987 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 984129002988 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 984129002989 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129002990 Isochorismatase family; Region: Isochorismatase; pfam00857 984129002991 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 984129002992 catalytic triad [active] 984129002993 conserved cis-peptide bond; other site 984129002994 Isochorismatase family; Region: Isochorismatase; pfam00857 984129002995 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; cl00220 984129002996 catalytic triad [active] 984129002997 conserved cis-peptide bond; other site 984129002998 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 984129002999 active site 984129003000 DNA binding site [nucleotide binding] 984129003001 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 984129003002 intersubunit interface [polypeptide binding]; other site 984129003003 active site 984129003004 Zn2+ binding site [ion binding]; other site 984129003005 histidine decarboxylase; Provisional; Region: PRK02769 984129003006 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129003007 catalytic residue [active] 984129003008 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 984129003009 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 984129003010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 984129003011 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 984129003012 RmuC family; Region: RmuC; pfam02646 984129003013 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 984129003014 RuvA N terminal domain; Region: RuvA_N; pfam01330 984129003015 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 984129003016 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 984129003017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129003018 putative substrate translocation pore; other site 984129003019 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 984129003020 active site 984129003021 putative DNA-binding cleft [nucleotide binding]; other site 984129003022 dimer interface [polypeptide binding]; other site 984129003023 hypothetical protein; Validated; Region: PRK00110 984129003024 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 984129003025 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 984129003026 conserved cys residue [active] 984129003027 lipoyl synthase; Provisional; Region: PRK05481 984129003028 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 984129003029 FeS/SAM binding site; other site 984129003030 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 984129003031 Ferritin-like domain; Region: Ferritin; pfam00210 984129003032 ferroxidase diiron center [ion binding]; other site 984129003033 potential frameshift: common BLAST hit: gi|187931876|ref|YP_001891861.1| proton-dependent oligopeptide transporter (POT) family protein, di- 984129003034 POT family; Region: PTR2; cl17359 984129003035 potential frameshift: common BLAST hit: gi|187931876|ref|YP_001891861.1| proton-dependent oligopeptide transporter (POT) family protein 984129003036 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 984129003037 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129003038 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 984129003039 N-terminal domain interface [polypeptide binding]; other site 984129003040 ferredoxin; Provisional; Region: PRK08764 984129003041 Putative Fe-S cluster; Region: FeS; cl17515 984129003042 4Fe-4S binding domain; Region: Fer4; pfam00037 984129003043 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 984129003044 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 984129003045 minor groove reading motif; other site 984129003046 helix-hairpin-helix signature motif; other site 984129003047 substrate binding pocket [chemical binding]; other site 984129003048 active site 984129003049 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 984129003050 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 984129003051 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 984129003052 YccA-like proteins; Region: YccA_like; cd10433 984129003053 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 984129003054 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 984129003055 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 984129003056 ATP binding site [chemical binding]; other site 984129003057 putative Mg++ binding site [ion binding]; other site 984129003058 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 984129003059 nucleotide binding region [chemical binding]; other site 984129003060 ATP-binding site [chemical binding]; other site 984129003061 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 984129003062 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 984129003063 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 984129003064 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 984129003065 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 984129003066 putative valine binding site [chemical binding]; other site 984129003067 dimer interface [polypeptide binding]; other site 984129003068 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 984129003069 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 984129003070 PYR/PP interface [polypeptide binding]; other site 984129003071 dimer interface [polypeptide binding]; other site 984129003072 TPP binding site [chemical binding]; other site 984129003073 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 984129003074 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 984129003075 TPP-binding site [chemical binding]; other site 984129003076 dimer interface [polypeptide binding]; other site 984129003077 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129003078 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 984129003079 threonine synthase; Reviewed; Region: PRK06721 984129003080 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 984129003081 homodimer interface [polypeptide binding]; other site 984129003082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129003083 catalytic residue [active] 984129003084 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 984129003085 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 984129003086 G1 box; other site 984129003087 GTP/Mg2+ binding site [chemical binding]; other site 984129003088 Switch I region; other site 984129003089 G2 box; other site 984129003090 G3 box; other site 984129003091 Switch II region; other site 984129003092 G4 box; other site 984129003093 G5 box; other site 984129003094 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 984129003095 Low molecular weight phosphatase family; Region: LMWPc; cd00115 984129003096 active site 984129003097 FtsH protease regulator HflC; Provisional; Region: PRK11029 984129003098 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 984129003099 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 984129003100 HflK protein; Region: hflK; TIGR01933 984129003101 hypothetical protein; Provisional; Region: PRK07588 984129003102 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 984129003103 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 984129003104 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 984129003105 HflX GTPase family; Region: HflX; cd01878 984129003106 G1 box; other site 984129003107 GTP/Mg2+ binding site [chemical binding]; other site 984129003108 Switch I region; other site 984129003109 G2 box; other site 984129003110 G3 box; other site 984129003111 Switch II region; other site 984129003112 G4 box; other site 984129003113 G5 box; other site 984129003114 bacterial Hfq-like; Region: Hfq; cd01716 984129003115 hexamer interface [polypeptide binding]; other site 984129003116 Sm1 motif; other site 984129003117 RNA binding site [nucleotide binding]; other site 984129003118 Sm2 motif; other site 984129003119 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 984129003120 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 984129003121 SurA N-terminal domain; Region: SurA_N_3; cl07813 984129003122 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 984129003123 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 984129003124 IHF dimer interface [polypeptide binding]; other site 984129003125 IHF - DNA interface [nucleotide binding]; other site 984129003126 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 984129003127 Found in ATP-dependent protease La (LON); Region: LON; smart00464 984129003128 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 984129003129 Walker A motif; other site 984129003130 ATP binding site [chemical binding]; other site 984129003131 Walker B motif; other site 984129003132 arginine finger; other site 984129003133 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 984129003134 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 984129003135 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 984129003136 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 984129003137 Walker A motif; other site 984129003138 ATP binding site [chemical binding]; other site 984129003139 Walker B motif; other site 984129003140 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 984129003141 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 984129003142 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 984129003143 oligomer interface [polypeptide binding]; other site 984129003144 active site residues [active] 984129003145 trigger factor; Provisional; Region: tig; PRK01490 984129003146 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 984129003147 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 984129003148 thymidine kinase; Provisional; Region: PRK04296 984129003149 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 984129003150 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 984129003151 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 984129003152 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 984129003153 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 984129003154 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 984129003155 FeS/SAM binding site; other site 984129003156 TRAM domain; Region: TRAM; pfam01938 984129003157 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 984129003158 PhoH-like protein; Region: PhoH; pfam02562 984129003159 metal-binding heat shock protein; Provisional; Region: PRK00016 984129003160 FOG: CBS domain [General function prediction only]; Region: COG0517 984129003161 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 984129003162 Transporter associated domain; Region: CorC_HlyC; smart01091 984129003163 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 984129003164 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 984129003165 putative active site [active] 984129003166 catalytic triad [active] 984129003167 putative dimer interface [polypeptide binding]; other site 984129003168 VirK protein; Region: VirK; pfam06903 984129003169 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129003170 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129003171 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129003172 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129003173 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 984129003174 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 984129003175 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 984129003176 beta-lactamase TEM; Provisional; Region: PRK15442 984129003177 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 984129003178 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 984129003179 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 984129003180 active site 984129003181 substrate binding site [chemical binding]; other site 984129003182 Mg2+ binding site [ion binding]; other site 984129003183 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 984129003184 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 984129003185 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 984129003186 active site 984129003187 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 984129003188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 984129003189 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 984129003190 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 984129003191 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 984129003192 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 984129003193 Uncharacterized conserved protein [Function unknown]; Region: COG0327 984129003194 potential frameshift: common BLAST hit: gi|337755219|ref|YP_004647730.1| beta-hexosaminidase 984129003195 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 984129003196 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 984129003197 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 984129003198 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 984129003199 putative substrate translocation pore; other site 984129003200 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 984129003201 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 984129003202 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 984129003203 dimer interface [polypeptide binding]; other site 984129003204 active site 984129003205 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 984129003206 dimer interface [polypeptide binding]; other site 984129003207 active site 984129003208 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 984129003209 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 984129003210 Uncharacterized conserved protein [Function unknown]; Region: COG0397 984129003211 hypothetical protein; Validated; Region: PRK00029 984129003212 Rubredoxin [Energy production and conversion]; Region: COG1773 984129003213 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 984129003214 iron binding site [ion binding]; other site 984129003215 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 984129003216 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 984129003217 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129003218 catalytic residue [active] 984129003219 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 984129003220 active site clefts [active] 984129003221 zinc binding site [ion binding]; other site 984129003222 dimer interface [polypeptide binding]; other site 984129003223 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 984129003224 active site 984129003225 homodimer interface [polypeptide binding]; other site 984129003226 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 984129003227 RNA/DNA hybrid binding site [nucleotide binding]; other site 984129003228 active site 984129003229 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 984129003230 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 984129003231 hinge; other site 984129003232 active site 984129003233 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 984129003234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 984129003235 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 984129003236 DNA binding residues [nucleotide binding] 984129003237 Src Homology 3 domain superfamily; Region: SH3; cl17036 984129003238 peptide ligand binding site [polypeptide binding]; other site 984129003239 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 984129003240 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 984129003241 Protein export membrane protein; Region: SecD_SecF; pfam02355 984129003242 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 984129003243 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 984129003244 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 984129003245 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 984129003246 Isochorismatase family; Region: Isochorismatase; pfam00857 984129003247 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 984129003248 catalytic triad [active] 984129003249 conserved cis-peptide bond; other site 984129003250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129003251 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 984129003252 dimerization interface [polypeptide binding]; other site 984129003253 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 984129003254 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 984129003255 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129003256 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129003257 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129003258 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 984129003259 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 984129003260 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 984129003261 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 984129003262 Walker A/P-loop; other site 984129003263 ATP binding site [chemical binding]; other site 984129003264 Q-loop/lid; other site 984129003265 ABC transporter signature motif; other site 984129003266 Walker B; other site 984129003267 D-loop; other site 984129003268 H-loop/switch region; other site 984129003269 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 984129003270 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 984129003271 dimer interface [polypeptide binding]; other site 984129003272 conserved gate region; other site 984129003273 ABC-ATPase subunit interface; other site 984129003274 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 984129003275 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 984129003276 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 984129003277 aromatic amino acid transport protein; Region: araaP; TIGR00837 984129003278 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 984129003279 active site residue [active] 984129003280 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 984129003281 active site residue [active] 984129003282 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 984129003283 homotrimer interaction site [polypeptide binding]; other site 984129003284 zinc binding site [ion binding]; other site 984129003285 CDP-binding sites; other site 984129003286 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129003287 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129003288 cyanophycin synthetase; Provisional; Region: PRK14016 984129003289 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984129003290 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129003291 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 984129003292 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 984129003293 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 984129003294 putative MPT binding site; other site 984129003295 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 984129003296 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 984129003297 active site 984129003298 catalytic site [active] 984129003299 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 984129003300 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 984129003301 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 984129003302 Walker A motif; other site 984129003303 ATP binding site [chemical binding]; other site 984129003304 Walker B motif; other site 984129003305 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 984129003306 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 984129003307 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 984129003308 Predicted ATPase [General function prediction only]; Region: COG4637 984129003309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129003310 Walker A/P-loop; other site 984129003311 ATP binding site [chemical binding]; other site 984129003312 Predicted membrane protein [Function unknown]; Region: COG1511 984129003313 ferrochelatase; Reviewed; Region: hemH; PRK00035 984129003314 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 984129003315 C-terminal domain interface [polypeptide binding]; other site 984129003316 active site 984129003317 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 984129003318 active site 984129003319 N-terminal domain interface [polypeptide binding]; other site 984129003320 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 984129003321 DNA photolyase; Region: DNA_photolyase; pfam00875 984129003322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129003323 NAD(P) binding site [chemical binding]; other site 984129003324 active site 984129003325 Putative cation transport regulator [General function prediction only]; Region: ChaB; COG4572 984129003326 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 984129003327 active site 984129003328 catalytic residues [active] 984129003329 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 984129003330 Flavoprotein; Region: Flavoprotein; pfam02441 984129003331 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 984129003332 benzoate transport; Region: 2A0115; TIGR00895 984129003333 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 984129003334 putative substrate translocation pore; other site 984129003335 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 984129003336 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 984129003337 Proline dehydrogenase; Region: Pro_dh; pfam01619 984129003338 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 984129003339 Glutamate binding site [chemical binding]; other site 984129003340 NAD binding site [chemical binding]; other site 984129003341 catalytic residues [active] 984129003342 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 984129003343 NAD(P) binding site [chemical binding]; other site 984129003344 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 984129003345 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 984129003346 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 984129003347 active site 984129003348 dimer interface [polypeptide binding]; other site 984129003349 metal binding site [ion binding]; metal-binding site 984129003350 shikimate kinase; Reviewed; Region: aroK; PRK00131 984129003351 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 984129003352 ADP binding site [chemical binding]; other site 984129003353 magnesium binding site [ion binding]; other site 984129003354 putative shikimate binding site; other site 984129003355 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 984129003356 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 984129003357 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 984129003358 Pilus assembly protein, PilP; Region: PilP; pfam04351 984129003359 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 984129003360 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 984129003361 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 984129003362 adenylate kinase; Reviewed; Region: adk; PRK00279 984129003363 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 984129003364 AMP-binding site [chemical binding]; other site 984129003365 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 984129003366 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 984129003367 FAD binding domain; Region: FAD_binding_4; pfam01565 984129003368 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 984129003369 GTPase Era; Reviewed; Region: era; PRK00089 984129003370 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 984129003371 G1 box; other site 984129003372 GTP/Mg2+ binding site [chemical binding]; other site 984129003373 Switch I region; other site 984129003374 G2 box; other site 984129003375 Switch II region; other site 984129003376 G3 box; other site 984129003377 G4 box; other site 984129003378 G5 box; other site 984129003379 aspartate aminotransferase; Provisional; Region: PRK05764 984129003380 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 984129003381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129003382 homodimer interface [polypeptide binding]; other site 984129003383 catalytic residue [active] 984129003384 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 984129003385 putative active site [active] 984129003386 putative dimer interface [polypeptide binding]; other site 984129003387 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 984129003388 Glycoprotease family; Region: Peptidase_M22; pfam00814 984129003389 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 984129003390 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 984129003391 active site 984129003392 dimer interface [polypeptide binding]; other site 984129003393 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 984129003394 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 984129003395 GTP/Mg2+ binding site [chemical binding]; other site 984129003396 G4 box; other site 984129003397 G5 box; other site 984129003398 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 984129003399 G1 box; other site 984129003400 G1 box; other site 984129003401 GTP/Mg2+ binding site [chemical binding]; other site 984129003402 Switch I region; other site 984129003403 G2 box; other site 984129003404 G2 box; other site 984129003405 Switch I region; other site 984129003406 G3 box; other site 984129003407 G3 box; other site 984129003408 Switch II region; other site 984129003409 Switch II region; other site 984129003410 G4 box; other site 984129003411 Sel1-like repeats; Region: SEL1; smart00671 984129003412 HsdM N-terminal domain; Region: HsdM_N; pfam12161 984129003413 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 984129003414 Methyltransferase domain; Region: Methyltransf_26; pfam13659 984129003415 Transposase IS200 like; Region: Y1_Tnp; cl00848 984129003416 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984129003417 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 984129003418 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 984129003419 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 984129003420 DEAD-like helicases superfamily; Region: DEXDc; smart00487 984129003421 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 984129003422 ATP binding site [chemical binding]; other site 984129003423 putative Mg++ binding site [ion binding]; other site 984129003424 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 984129003425 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 984129003426 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 984129003427 G1 box; other site 984129003428 putative GEF interaction site [polypeptide binding]; other site 984129003429 GTP/Mg2+ binding site [chemical binding]; other site 984129003430 Switch I region; other site 984129003431 G2 box; other site 984129003432 G3 box; other site 984129003433 Switch II region; other site 984129003434 G4 box; other site 984129003435 G5 box; other site 984129003436 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 984129003437 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 984129003438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129003439 short chain dehydrogenase; Validated; Region: PRK07069 984129003440 NAD(P) binding site [chemical binding]; other site 984129003441 active site 984129003442 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 984129003443 S-adenosylmethionine binding site [chemical binding]; other site 984129003444 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 984129003445 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 984129003446 VacJ like lipoprotein; Region: VacJ; cl01073 984129003447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984129003448 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 984129003449 hypothetical protein; Validated; Region: PRK01777 984129003450 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 984129003451 putative coenzyme Q binding site [chemical binding]; other site 984129003452 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 984129003453 SmpB-tmRNA interface; other site 984129003454 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 984129003455 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 984129003456 Ligand Binding Site [chemical binding]; other site 984129003457 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 984129003458 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129003459 putative substrate translocation pore; other site 984129003460 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 984129003461 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 984129003462 generic binding surface II; other site 984129003463 generic binding surface I; other site 984129003464 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 984129003465 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 984129003466 metal binding site [ion binding]; metal-binding site 984129003467 dimer interface [polypeptide binding]; other site 984129003468 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 984129003469 putative dimer interface [polypeptide binding]; other site 984129003470 putative active site [active] 984129003471 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 984129003472 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 984129003473 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 984129003474 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 984129003475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 984129003476 Uncharacterized conserved protein [Function unknown]; Region: COG2308 984129003477 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129003478 glutamate racemase; Provisional; Region: PRK00865 984129003479 Nuclease-related domain; Region: NERD; pfam08378 984129003480 excinuclease ABC subunit B; Provisional; Region: PRK05298 984129003481 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 984129003482 ATP binding site [chemical binding]; other site 984129003483 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 984129003484 nucleotide binding region [chemical binding]; other site 984129003485 ATP-binding site [chemical binding]; other site 984129003486 Ultra-violet resistance protein B; Region: UvrB; pfam12344 984129003487 UvrB/uvrC motif; Region: UVR; pfam02151 984129003488 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 984129003489 active site 984129003490 catalytic site [active] 984129003491 substrate binding site [chemical binding]; other site 984129003492 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 984129003493 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 984129003494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129003495 NAD(P) binding site [chemical binding]; other site 984129003496 active site 984129003497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129003498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129003499 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 984129003500 putative effector binding pocket; other site 984129003501 dimerization interface [polypeptide binding]; other site 984129003502 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984129003503 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 984129003504 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 984129003505 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 984129003506 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 984129003507 tetramer (dimer of dimers) interface [polypeptide binding]; other site 984129003508 active site 984129003509 dimer interface [polypeptide binding]; other site 984129003510 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 984129003511 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 984129003512 active site 984129003513 Zn binding site [ion binding]; other site 984129003514 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 984129003515 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 984129003516 23S rRNA binding site [nucleotide binding]; other site 984129003517 L21 binding site [polypeptide binding]; other site 984129003518 L13 binding site [polypeptide binding]; other site 984129003519 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 984129003520 translation initiation factor IF-3; Region: infC; TIGR00168 984129003521 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 984129003522 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 984129003523 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 984129003524 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 984129003525 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 984129003526 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 984129003527 active site 984129003528 dimer interface [polypeptide binding]; other site 984129003529 motif 1; other site 984129003530 motif 2; other site 984129003531 motif 3; other site 984129003532 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 984129003533 anticodon binding site; other site 984129003534 Chitin binding domain; Region: Chitin_bind_3; pfam03067 984129003535 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 984129003536 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129003537 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 984129003538 lipoyl attachment site [posttranslational modification]; other site 984129003539 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 984129003540 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 984129003541 homodimer interface [polypeptide binding]; other site 984129003542 active site 984129003543 hypothetical protein; Validated; Region: PRK00153 984129003544 recombination protein RecR; Provisional; Region: PRK13844 984129003545 RecR protein; Region: RecR; pfam02132 984129003546 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 984129003547 putative active site [active] 984129003548 putative metal-binding site [ion binding]; other site 984129003549 tetramer interface [polypeptide binding]; other site 984129003550 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984129003551 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 984129003552 Zn2+ binding site [ion binding]; other site 984129003553 Mg2+ binding site [ion binding]; other site 984129003554 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984129003555 synthetase active site [active] 984129003556 NTP binding site [chemical binding]; other site 984129003557 metal binding site [ion binding]; metal-binding site 984129003558 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 984129003559 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 984129003560 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 984129003561 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 984129003562 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 984129003563 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 984129003564 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 984129003565 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129003566 putative substrate translocation pore; other site 984129003567 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 984129003568 catalytic nucleophile [active] 984129003569 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 984129003570 proposed catalytic triad [active] 984129003571 active site nucleophile [active] 984129003572 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 984129003573 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 984129003574 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 984129003575 substrate binding site [chemical binding]; other site 984129003576 ATP binding site [chemical binding]; other site 984129003577 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129003578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129003579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129003580 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 984129003581 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 984129003582 motif II; other site 984129003583 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 984129003584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984129003585 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 984129003586 active site 984129003587 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 984129003588 active site 984129003589 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 984129003590 Methyltransferase domain; Region: Methyltransf_23; pfam13489 984129003591 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 984129003592 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 984129003593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984129003594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129003595 Walker A/P-loop; other site 984129003596 ATP binding site [chemical binding]; other site 984129003597 Q-loop/lid; other site 984129003598 ABC transporter signature motif; other site 984129003599 Walker B; other site 984129003600 D-loop; other site 984129003601 H-loop/switch region; other site 984129003602 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984129003603 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_4; cd03795 984129003604 putative ADP-binding pocket [chemical binding]; other site 984129003605 UDP-glucose 4-epimerase; Region: PLN02240 984129003606 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 984129003607 NAD binding site [chemical binding]; other site 984129003608 homodimer interface [polypeptide binding]; other site 984129003609 active site 984129003610 substrate binding site [chemical binding]; other site 984129003611 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 984129003612 Bacterial sugar transferase; Region: Bac_transf; pfam02397 984129003613 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 984129003614 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 984129003615 substrate binding site [chemical binding]; other site 984129003616 hexamer interface [polypeptide binding]; other site 984129003617 metal binding site [ion binding]; metal-binding site 984129003618 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 984129003619 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 984129003620 putative active site [active] 984129003621 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 984129003622 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 984129003623 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 984129003624 NAD binding site [chemical binding]; other site 984129003625 homotetramer interface [polypeptide binding]; other site 984129003626 homodimer interface [polypeptide binding]; other site 984129003627 substrate binding site [chemical binding]; other site 984129003628 active site 984129003629 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 984129003630 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 984129003631 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 984129003632 dimer interface [polypeptide binding]; other site 984129003633 active site 984129003634 metal binding site [ion binding]; metal-binding site 984129003635 glutathione binding site [chemical binding]; other site 984129003636 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 984129003637 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 984129003638 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 984129003639 active site 984129003640 motif I; other site 984129003641 motif II; other site 984129003642 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984129003643 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 984129003644 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 984129003645 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 984129003646 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 984129003647 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 984129003648 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 984129003649 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 984129003650 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 984129003651 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 984129003652 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 984129003653 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 984129003654 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 984129003655 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 984129003656 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 984129003657 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 984129003658 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 984129003659 Recombination protein O N terminal; Region: RecO_N; pfam11967 984129003660 Recombination protein O C terminal; Region: RecO_C; pfam02565 984129003661 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 984129003662 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 984129003663 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 984129003664 catalytic residue [active] 984129003665 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 984129003666 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 984129003667 homodimer interface [polypeptide binding]; other site 984129003668 oligonucleotide binding site [chemical binding]; other site 984129003669 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 984129003670 thymidylate synthase; Reviewed; Region: thyA; PRK01827 984129003671 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 984129003672 dimerization interface [polypeptide binding]; other site 984129003673 active site 984129003674 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 984129003675 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 984129003676 ligand binding site [chemical binding]; other site 984129003677 NAD binding site [chemical binding]; other site 984129003678 tetramer interface [polypeptide binding]; other site 984129003679 catalytic site [active] 984129003680 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 984129003681 L-serine binding site [chemical binding]; other site 984129003682 ACT domain interface; other site 984129003683 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 984129003684 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 984129003685 Ligand Binding Site [chemical binding]; other site 984129003686 TilS substrate C-terminal domain; Region: TilS_C; smart00977 984129003687 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 984129003688 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 984129003689 POT family; Region: PTR2; cl17359 984129003690 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 984129003691 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 984129003692 active site 984129003693 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984129003694 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 984129003695 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 984129003696 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 984129003697 Ligand binding site; other site 984129003698 metal-binding site 984129003699 hypothetical protein; Provisional; Region: PRK05255 984129003700 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 984129003701 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 984129003702 dimer interface [polypeptide binding]; other site 984129003703 active site 984129003704 glycine-pyridoxal phosphate binding site [chemical binding]; other site 984129003705 folate binding site [chemical binding]; other site 984129003706 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129003707 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 984129003708 FAD binding domain; Region: FAD_binding_4; pfam01565 984129003709 Berberine and berberine like; Region: BBE; pfam08031 984129003710 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 984129003711 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 984129003712 TPR motif; other site 984129003713 binding surface 984129003714 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 984129003715 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 984129003716 RNA binding surface [nucleotide binding]; other site 984129003717 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984129003718 active site 984129003719 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 984129003720 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 984129003721 Permease; Region: Permease; pfam02405 984129003722 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 984129003723 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129003724 Walker A/P-loop; other site 984129003725 ATP binding site [chemical binding]; other site 984129003726 Q-loop/lid; other site 984129003727 ABC transporter signature motif; other site 984129003728 Walker B; other site 984129003729 D-loop; other site 984129003730 H-loop/switch region; other site 984129003731 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 984129003732 mce related protein; Region: MCE; pfam02470 984129003733 Protein of unknown function (DUF445); Region: DUF445; pfam04286 984129003734 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 984129003735 RNA methyltransferase, RsmE family; Region: TIGR00046 984129003736 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 984129003737 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 984129003738 putative substrate translocation pore; other site 984129003739 POT family; Region: PTR2; cl17359 984129003740 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 984129003741 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 984129003742 acyl-activating enzyme (AAE) consensus motif; other site 984129003743 putative AMP binding site [chemical binding]; other site 984129003744 putative active site [active] 984129003745 putative CoA binding site [chemical binding]; other site 984129003746 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 984129003747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 984129003748 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 984129003749 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 984129003750 putative substrate translocation pore; other site 984129003751 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 984129003752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984129003753 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129003754 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 984129003755 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 984129003756 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 984129003757 homodimer interface [polypeptide binding]; other site 984129003758 NAD binding pocket [chemical binding]; other site 984129003759 ATP binding pocket [chemical binding]; other site 984129003760 Mg binding site [ion binding]; other site 984129003761 active-site loop [active] 984129003762 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 984129003763 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 984129003764 Pirin-related protein [General function prediction only]; Region: COG1741 984129003765 Pirin; Region: Pirin; pfam02678 984129003766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129003767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129003768 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 984129003769 putative effector binding pocket; other site 984129003770 dimerization interface [polypeptide binding]; other site 984129003771 chaperone protein DnaJ; Provisional; Region: PRK10767 984129003772 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 984129003773 HSP70 interaction site [polypeptide binding]; other site 984129003774 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 984129003775 substrate binding site [polypeptide binding]; other site 984129003776 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 984129003777 Zn binding sites [ion binding]; other site 984129003778 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 984129003779 dimer interface [polypeptide binding]; other site 984129003780 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 984129003781 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 984129003782 nucleotide binding site [chemical binding]; other site 984129003783 GrpE; Region: GrpE; pfam01025 984129003784 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 984129003785 dimer interface [polypeptide binding]; other site 984129003786 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 984129003787 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 984129003788 MltA specific insert domain; Region: MltA; smart00925 984129003789 3D domain; Region: 3D; pfam06725 984129003790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984129003791 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 984129003792 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 984129003793 23S rRNA interface [nucleotide binding]; other site 984129003794 L3 interface [polypeptide binding]; other site 984129003795 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 984129003796 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 984129003797 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 984129003798 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 984129003799 Na binding site [ion binding]; other site 984129003800 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 984129003801 RNA/DNA hybrid binding site [nucleotide binding]; other site 984129003802 active site 984129003803 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 984129003804 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 984129003805 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 984129003806 active site 984129003807 phosphorylation site [posttranslational modification] 984129003808 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 984129003809 30S subunit binding site; other site 984129003810 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 984129003811 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 984129003812 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 984129003813 trmE is a tRNA modification GTPase; Region: trmE; cd04164 984129003814 G1 box; other site 984129003815 GTP/Mg2+ binding site [chemical binding]; other site 984129003816 Switch I region; other site 984129003817 G2 box; other site 984129003818 Switch II region; other site 984129003819 G3 box; other site 984129003820 G4 box; other site 984129003821 G5 box; other site 984129003822 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 984129003823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129003824 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 984129003825 putative DNA binding site [nucleotide binding]; other site 984129003826 putative Zn2+ binding site [ion binding]; other site 984129003827 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 984129003828 dimerization interface [polypeptide binding]; other site 984129003829 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 984129003830 active site 984129003831 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 984129003832 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 984129003833 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 984129003834 dimer interface [polypeptide binding]; other site 984129003835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129003836 catalytic residue [active] 984129003837 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 984129003838 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 984129003839 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 984129003840 Intracellular growth locus C protein; Region: IglC; pfam11550 984129003841 Protein of unknown function (DUF877); Region: DUF877; pfam05943 984129003842 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 984129003843 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 984129003844 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 984129003845 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 984129003846 putative substrate translocation pore; other site 984129003847 Trehalase; Region: Trehalase; cl17346 984129003848 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 984129003849 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 984129003850 intersubunit interface [polypeptide binding]; other site 984129003851 active site 984129003852 zinc binding site [ion binding]; other site 984129003853 Na+ binding site [ion binding]; other site 984129003854 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 984129003855 pyruvate kinase; Provisional; Region: PRK05826 984129003856 domain interfaces; other site 984129003857 active site 984129003858 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 984129003859 Phosphoglycerate kinase; Region: PGK; pfam00162 984129003860 substrate binding site [chemical binding]; other site 984129003861 hinge regions; other site 984129003862 ADP binding site [chemical binding]; other site 984129003863 catalytic site [active] 984129003864 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 984129003865 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 984129003866 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 984129003867 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 984129003868 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 984129003869 TPP-binding site [chemical binding]; other site 984129003870 dimer interface [polypeptide binding]; other site 984129003871 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 984129003872 PYR/PP interface [polypeptide binding]; other site 984129003873 dimer interface [polypeptide binding]; other site 984129003874 TPP binding site [chemical binding]; other site 984129003875 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 984129003876 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 984129003877 putative phosphate acyltransferase; Provisional; Region: PRK05331 984129003878 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 984129003879 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 984129003880 dimer interface [polypeptide binding]; other site 984129003881 active site 984129003882 CoA binding pocket [chemical binding]; other site 984129003883 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 984129003884 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 984129003885 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 984129003886 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 984129003887 NAD(P) binding site [chemical binding]; other site 984129003888 homotetramer interface [polypeptide binding]; other site 984129003889 homodimer interface [polypeptide binding]; other site 984129003890 active site 984129003891 acyl carrier protein; Provisional; Region: acpP; PRK00982 984129003892 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 984129003893 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 984129003894 dimer interface [polypeptide binding]; other site 984129003895 active site 984129003896 YCII-related domain; Region: YCII; cl00999 984129003897 Uncharacterized conserved protein [Function unknown]; Region: COG4121 984129003898 putative transporter; Provisional; Region: PRK03699 984129003899 Predicted membrane protein [Function unknown]; Region: COG2855 984129003900 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 984129003901 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 984129003902 active site 984129003903 dimerization interface [polypeptide binding]; other site 984129003904 16S rRNA methyltransferase B; Provisional; Region: PRK10901 984129003905 NusB family; Region: NusB; pfam01029 984129003906 putative RNA binding site [nucleotide binding]; other site 984129003907 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 984129003908 S-adenosylmethionine binding site [chemical binding]; other site 984129003909 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 984129003910 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 984129003911 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 984129003912 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 984129003913 nucleotide binding pocket [chemical binding]; other site 984129003914 K-X-D-G motif; other site 984129003915 catalytic site [active] 984129003916 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 984129003917 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 984129003918 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 984129003919 Dimer interface [polypeptide binding]; other site 984129003920 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 984129003921 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 984129003922 active site 984129003923 oligomerization interface [polypeptide binding]; other site 984129003924 metal binding site [ion binding]; metal-binding site 984129003925 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 984129003926 pantoate--beta-alanine ligase; Region: panC; TIGR00018 984129003927 active site 984129003928 nucleotide binding site [chemical binding]; other site 984129003929 HIGH motif; other site 984129003930 KMSKS motif; other site 984129003931 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 984129003932 tetramerization interface [polypeptide binding]; other site 984129003933 active site 984129003934 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 984129003935 nucleotide binding site [chemical binding]; other site 984129003936 Type III pantothenate kinase; Region: Pan_kinase; cl17198 984129003937 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 984129003938 AAA domain; Region: AAA_30; pfam13604 984129003939 Family description; Region: UvrD_C_2; pfam13538 984129003940 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 984129003941 Family description; Region: UvrD_C_2; pfam13538 984129003942 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 984129003943 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 984129003944 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 984129003945 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 984129003946 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 984129003947 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 984129003948 active site 984129003949 FMN binding site [chemical binding]; other site 984129003950 substrate binding site [chemical binding]; other site 984129003951 3Fe-4S cluster binding site [ion binding]; other site 984129003952 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984129003953 EamA-like transporter family; Region: EamA; pfam00892 984129003954 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 984129003955 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 984129003956 non-specific DNA binding site [nucleotide binding]; other site 984129003957 salt bridge; other site 984129003958 sequence-specific DNA binding site [nucleotide binding]; other site 984129003959 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 984129003960 Catalytic site [active] 984129003961 FeoA domain; Region: FeoA; cl00838 984129003962 Sporulation related domain; Region: SPOR; pfam05036 984129003963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984129003964 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 984129003965 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 984129003966 active site 984129003967 Fe-S metabolism associated domain; Region: SufE; cl00951 984129003968 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 984129003969 prolyl-tRNA synthetase; Provisional; Region: PRK09194 984129003970 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 984129003971 dimer interface [polypeptide binding]; other site 984129003972 motif 1; other site 984129003973 active site 984129003974 motif 2; other site 984129003975 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 984129003976 putative deacylase active site [active] 984129003977 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 984129003978 active site 984129003979 motif 3; other site 984129003980 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 984129003981 anticodon binding site; other site 984129003982 methionine aminotransferase; Validated; Region: PRK09082 984129003983 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 984129003984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129003985 homodimer interface [polypeptide binding]; other site 984129003986 catalytic residue [active] 984129003987 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129003988 C-N hydrolase family amidase; Provisional; Region: PRK10438 984129003989 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 984129003990 putative active site [active] 984129003991 catalytic triad [active] 984129003992 dimer interface [polypeptide binding]; other site 984129003993 multimer interface [polypeptide binding]; other site 984129003994 transcription antitermination factor NusB; Region: nusB; TIGR01951 984129003995 putative RNA binding site [nucleotide binding]; other site 984129003996 Flagellin N-methylase; Region: FliB; cl00497 984129003997 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 984129003998 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984129003999 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 984129004000 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 984129004001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129004002 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984129004003 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 984129004004 active site residue [active] 984129004005 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 984129004006 active site residue [active] 984129004007 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 984129004008 putative DNA binding site [nucleotide binding]; other site 984129004009 putative Zn2+ binding site [ion binding]; other site 984129004010 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 984129004011 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 984129004012 CRISPR-associated protein Cas4, subtype PREFRAN; Region: cas4_PREFRAN; TIGR04328 984129004013 CRISPR-associated protein Cpf1, subtype PREFRAN; Region: cas_Cpf1; TIGR04330 984129004014 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 984129004015 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 984129004016 Coenzyme A binding pocket [chemical binding]; other site 984129004017 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 984129004018 LysE type translocator; Region: LysE; cl00565 984129004019 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 984129004020 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 984129004021 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 984129004022 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 984129004023 Ligand binding site; other site 984129004024 Putative Catalytic site; other site 984129004025 DXD motif; other site 984129004026 inner membrane transport permease; Provisional; Region: PRK15066 984129004027 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 984129004028 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 984129004029 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 984129004030 Walker A/P-loop; other site 984129004031 ATP binding site [chemical binding]; other site 984129004032 Q-loop/lid; other site 984129004033 ABC transporter signature motif; other site 984129004034 Walker B; other site 984129004035 D-loop; other site 984129004036 H-loop/switch region; other site 984129004037 hypothetical protein; Provisional; Region: PRK10621 984129004038 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 984129004039 Cupin domain; Region: Cupin_2; cl17218 984129004040 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 984129004041 active site 984129004042 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 984129004043 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129004044 putative substrate translocation pore; other site 984129004045 Ferritin-like domain; Region: Ferritin; pfam00210 984129004046 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 984129004047 dinuclear metal binding motif [ion binding]; other site 984129004048 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 984129004049 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 984129004050 dimer interface [polypeptide binding]; other site 984129004051 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 984129004052 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 984129004053 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 984129004054 Walker A motif; other site 984129004055 ATP binding site [chemical binding]; other site 984129004056 Walker B motif; other site 984129004057 recombination factor protein RarA; Provisional; Region: PRK14700 984129004058 arginine finger; other site 984129004059 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 984129004060 exopolyphosphatase; Region: exo_poly_only; TIGR03706 984129004061 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 984129004062 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 984129004063 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 984129004064 catalytic residues [active] 984129004065 transcription termination factor Rho; Provisional; Region: rho; PRK09376 984129004066 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 984129004067 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 984129004068 RNA binding site [nucleotide binding]; other site 984129004069 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 984129004070 multimer interface [polypeptide binding]; other site 984129004071 Walker A motif; other site 984129004072 ATP binding site [chemical binding]; other site 984129004073 Walker B motif; other site 984129004074 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 984129004075 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 984129004076 active site 984129004077 substrate binding site [chemical binding]; other site 984129004078 metal binding site [ion binding]; metal-binding site 984129004079 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 984129004080 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 984129004081 Substrate binding site; other site 984129004082 Cupin domain; Region: Cupin_2; cl17218 984129004083 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 984129004084 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 984129004085 NAD binding site [chemical binding]; other site 984129004086 substrate binding site [chemical binding]; other site 984129004087 homodimer interface [polypeptide binding]; other site 984129004088 active site 984129004089 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 984129004090 four helix bundle protein; Region: TIGR02436 984129004091 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 984129004092 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 984129004093 substrate binding site; other site 984129004094 tetramer interface; other site 984129004095 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 984129004096 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 984129004097 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 984129004098 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 984129004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129004100 inhibitor-cofactor binding pocket; inhibition site 984129004101 catalytic residue [active] 984129004102 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 984129004103 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 984129004104 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 984129004105 trimer interface [polypeptide binding]; other site 984129004106 active site 984129004107 substrate binding site [chemical binding]; other site 984129004108 CoA binding site [chemical binding]; other site 984129004109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 984129004110 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 984129004111 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 984129004112 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 984129004113 active site 984129004114 homodimer interface [polypeptide binding]; other site 984129004115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129004116 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 984129004117 NAD(P) binding site [chemical binding]; other site 984129004118 active site 984129004119 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 984129004120 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 984129004121 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 984129004122 NAD(P) binding site [chemical binding]; other site 984129004123 homodimer interface [polypeptide binding]; other site 984129004124 substrate binding site [chemical binding]; other site 984129004125 active site 984129004126 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 984129004127 putative glycosyl transferase; Provisional; Region: PRK10307 984129004128 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 984129004129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129004130 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 984129004131 NAD(P) binding site [chemical binding]; other site 984129004132 active site 984129004133 Bacterial sugar transferase; Region: Bac_transf; pfam02397 984129004134 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 984129004135 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 984129004136 NAD(P) binding site [chemical binding]; other site 984129004137 homodimer interface [polypeptide binding]; other site 984129004138 substrate binding site [chemical binding]; other site 984129004139 active site 984129004140 DEAD-like helicases superfamily; Region: DEXDc; smart00487 984129004141 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 984129004142 ATP binding site [chemical binding]; other site 984129004143 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 984129004144 putative Mg++ binding site [ion binding]; other site 984129004145 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 984129004146 nucleotide binding region [chemical binding]; other site 984129004147 ATP-binding site [chemical binding]; other site 984129004148 Helicase associated domain (HA2); Region: HA2; pfam04408 984129004149 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 984129004150 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 984129004151 Chain length determinant protein; Region: Wzz; cl15801 984129004152 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 984129004153 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 984129004154 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 984129004155 ArsC family; Region: ArsC; pfam03960 984129004156 catalytic residues [active] 984129004157 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 984129004158 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 984129004159 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 984129004160 acyl-activating enzyme (AAE) consensus motif; other site 984129004161 putative AMP binding site [chemical binding]; other site 984129004162 putative active site [active] 984129004163 putative CoA binding site [chemical binding]; other site 984129004164 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 984129004165 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 984129004166 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 984129004167 active site 984129004168 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 984129004169 Acyl CoA binding protein; Region: ACBP; pfam00887 984129004170 acyl-CoA binding pocket [chemical binding]; other site 984129004171 CoA binding site [chemical binding]; other site 984129004172 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 984129004173 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 984129004174 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 984129004175 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 984129004176 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 984129004177 substrate binding site [chemical binding]; other site 984129004178 oxyanion hole (OAH) forming residues; other site 984129004179 trimer interface [polypeptide binding]; other site 984129004180 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 984129004181 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 984129004182 dimer interface [polypeptide binding]; other site 984129004183 active site 984129004184 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 984129004185 CoenzymeA binding site [chemical binding]; other site 984129004186 subunit interaction site [polypeptide binding]; other site 984129004187 PHB binding site; other site 984129004188 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 984129004189 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 984129004190 putative substrate translocation pore; other site 984129004191 Protein of unknown function (DUF465); Region: DUF465; pfam04325 984129004192 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 984129004193 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 984129004194 active site 984129004195 ornithine cyclodeaminase; Validated; Region: PRK07589 984129004196 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 984129004197 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 984129004198 Amidinotransferase; Region: Amidinotransf; pfam02274 984129004199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 984129004200 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 984129004201 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984129004202 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 984129004203 active site 984129004204 phosphorylation site [posttranslational modification] 984129004205 intermolecular recognition site; other site 984129004206 dimerization interface [polypeptide binding]; other site 984129004207 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 984129004208 DNA binding site [nucleotide binding] 984129004209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984129004210 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 984129004211 dimer interface [polypeptide binding]; other site 984129004212 phosphorylation site [posttranslational modification] 984129004213 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 984129004214 ATP binding site [chemical binding]; other site 984129004215 Mg2+ binding site [ion binding]; other site 984129004216 G-X-G motif; other site 984129004217 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 984129004218 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984129004219 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 984129004220 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 984129004221 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 984129004222 S-adenosylmethionine binding site [chemical binding]; other site 984129004223 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 984129004224 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 984129004225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 984129004226 NAD(P) binding site [chemical binding]; other site 984129004227 active site 984129004228 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 984129004229 Fatty acid desaturase; Region: FA_desaturase; pfam00487 984129004230 Di-iron ligands [ion binding]; other site 984129004231 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 984129004232 ribonuclease R; Region: RNase_R; TIGR02063 984129004233 RNB domain; Region: RNB; pfam00773 984129004234 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 984129004235 RNA binding site [nucleotide binding]; other site 984129004236 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 984129004237 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 984129004238 RNA binding site [nucleotide binding]; other site 984129004239 active site 984129004240 ribonuclease III; Reviewed; Region: rnc; PRK00102 984129004241 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 984129004242 dimerization interface [polypeptide binding]; other site 984129004243 active site 984129004244 metal binding site [ion binding]; metal-binding site 984129004245 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 984129004246 dsRNA binding site [nucleotide binding]; other site 984129004247 signal peptidase I; Provisional; Region: PRK10861 984129004248 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 984129004249 Catalytic site [active] 984129004250 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 984129004251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984129004252 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 984129004253 active site 984129004254 phosphorylation site [posttranslational modification] 984129004255 intermolecular recognition site; other site 984129004256 dimerization interface [polypeptide binding]; other site 984129004257 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 984129004258 DNA binding site [nucleotide binding] 984129004259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 984129004260 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 984129004261 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 984129004262 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 984129004263 active site 984129004264 dimerization interface [polypeptide binding]; other site 984129004265 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 984129004266 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 984129004267 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 984129004268 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 984129004269 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 984129004270 substrate binding pocket [chemical binding]; other site 984129004271 chain length determination region; other site 984129004272 substrate-Mg2+ binding site; other site 984129004273 catalytic residues [active] 984129004274 aspartate-rich region 1; other site 984129004275 active site lid residues [active] 984129004276 aspartate-rich region 2; other site 984129004277 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 984129004278 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 984129004279 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 984129004280 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 984129004281 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 984129004282 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984129004283 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 984129004284 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 984129004285 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 984129004286 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 984129004287 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 984129004288 active site 984129004289 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 984129004290 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 984129004291 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 984129004292 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 984129004293 trimer interface [polypeptide binding]; other site 984129004294 active site 984129004295 UDP-GlcNAc binding site [chemical binding]; other site 984129004296 lipid binding site [chemical binding]; lipid-binding site 984129004297 periplasmic chaperone; Provisional; Region: PRK10780 984129004298 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 984129004299 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 984129004300 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984129004301 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984129004302 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984129004303 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 984129004304 Surface antigen; Region: Bac_surface_Ag; pfam01103 984129004305 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 984129004306 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 984129004307 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 984129004308 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 984129004309 DNA gyrase subunit A; Validated; Region: PRK05560 984129004310 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 984129004311 CAP-like domain; other site 984129004312 active site 984129004313 primary dimer interface [polypeptide binding]; other site 984129004314 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004315 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004316 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004317 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004318 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004319 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 984129004320 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 984129004321 aromatic chitin/cellulose binding site residues [chemical binding]; other site 984129004322 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 984129004323 ligand binding site [chemical binding]; other site 984129004324 active site 984129004325 UGI interface [polypeptide binding]; other site 984129004326 catalytic site [active] 984129004327 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 984129004328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984129004329 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 984129004330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129004331 NAD binding site [chemical binding]; other site 984129004332 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984129004333 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 984129004334 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 984129004335 E3 interaction surface; other site 984129004336 lipoyl attachment site [posttranslational modification]; other site 984129004337 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 984129004338 E3 interaction surface; other site 984129004339 lipoyl attachment site [posttranslational modification]; other site 984129004340 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 984129004341 E3 interaction surface; other site 984129004342 lipoyl attachment site [posttranslational modification]; other site 984129004343 e3 binding domain; Region: E3_binding; pfam02817 984129004344 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984129004345 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 984129004346 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 984129004347 dimer interface [polypeptide binding]; other site 984129004348 TPP-binding site [chemical binding]; other site 984129004349 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 984129004350 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 984129004351 AB domain interface; other site 984129004352 putative substrate binding pocket [chemical binding]; other site 984129004353 catalytic triad [active] 984129004354 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 984129004355 dephospho-CoA kinase; Region: TIGR00152 984129004356 CoA-binding site [chemical binding]; other site 984129004357 ATP-binding [chemical binding]; other site 984129004358 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 984129004359 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 984129004360 active site 984129004361 HIGH motif; other site 984129004362 dimer interface [polypeptide binding]; other site 984129004363 KMSKS motif; other site 984129004364 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 984129004365 Zeta toxin; Region: Zeta_toxin; pfam06414 984129004366 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 984129004367 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 984129004368 putative active site [active] 984129004369 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 984129004370 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 984129004371 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 984129004372 MutS domain I; Region: MutS_I; pfam01624 984129004373 MutS domain III; Region: MutS_III; pfam05192 984129004374 MutS domain V; Region: MutS_V; pfam00488 984129004375 Walker A/P-loop; other site 984129004376 ATP binding site [chemical binding]; other site 984129004377 Q-loop/lid; other site 984129004378 ABC transporter signature motif; other site 984129004379 Walker B; other site 984129004380 D-loop; other site 984129004381 H-loop/switch region; other site 984129004382 preprotein translocase subunit SecB; Validated; Region: PRK05751 984129004383 SecA binding site; other site 984129004384 Preprotein binding site; other site 984129004385 hypothetical protein; Provisional; Region: PRK07206 984129004386 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 984129004387 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 984129004388 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 984129004389 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 984129004390 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 984129004391 active site 984129004392 DNA binding site [nucleotide binding] 984129004393 Int/Topo IB signature motif; other site 984129004394 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 984129004395 S-adenosylmethionine binding site [chemical binding]; other site 984129004396 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 984129004397 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 984129004398 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 984129004399 HD domain; Region: HD_4; pfam13328 984129004400 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 984129004401 synthetase active site [active] 984129004402 NTP binding site [chemical binding]; other site 984129004403 metal binding site [ion binding]; metal-binding site 984129004404 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 984129004405 Phosphoinositide 3-kinase family, accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear, but it has been suggested to be involved in substrate presentation. Phosphoinositide 3-kinases play an important role in...; Region: PI3Ka; cl00271 984129004406 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 984129004407 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 984129004408 EamA-like transporter family; Region: EamA; pfam00892 984129004409 EamA-like transporter family; Region: EamA; pfam00892 984129004410 chaperone protein DnaJ; Provisional; Region: PRK14299 984129004411 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 984129004412 HSP70 interaction site [polypeptide binding]; other site 984129004413 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 984129004414 substrate binding site [polypeptide binding]; other site 984129004415 dimer interface [polypeptide binding]; other site 984129004416 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 984129004417 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 984129004418 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 984129004419 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129004420 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129004421 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129004422 Transposase; Region: DEDD_Tnp_IS110; pfam01548 984129004423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 984129004424 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 984129004425 Transposase domain (DUF772); Region: DUF772; pfam05598 984129004426 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 984129004427 DDE superfamily endonuclease; Region: DDE_4; cl17710 984129004428 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 984129004429 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 984129004430 mercuric reductase; Validated; Region: PRK06370 984129004431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 984129004432 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 984129004433 Uncharacterized conserved protein [Function unknown]; Region: COG0398 984129004434 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 984129004435 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 984129004436 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 984129004437 DNA binding site [nucleotide binding] 984129004438 active site 984129004439 Amino acid permease; Region: AA_permease_2; pfam13520 984129004440 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 984129004441 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 984129004442 active site 984129004443 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129004444 substrate binding site [chemical binding]; other site 984129004445 catalytic residues [active] 984129004446 dimer interface [polypeptide binding]; other site 984129004447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 984129004448 glutamate dehydrogenase; Provisional; Region: PRK09414 984129004449 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 984129004450 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 984129004451 NAD(P) binding site [chemical binding]; other site 984129004452 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 984129004453 HI0933-like protein; Region: HI0933_like; pfam03486 984129004454 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 984129004455 short chain dehydrogenase; Provisional; Region: PRK05993 984129004456 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 984129004457 NADP binding site [chemical binding]; other site 984129004458 active site 984129004459 steroid binding site; other site 984129004460 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 984129004461 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 984129004462 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 984129004463 ring oligomerisation interface [polypeptide binding]; other site 984129004464 ATP/Mg binding site [chemical binding]; other site 984129004465 stacking interactions; other site 984129004466 hinge regions; other site 984129004467 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 984129004468 oligomerisation interface [polypeptide binding]; other site 984129004469 mobile loop; other site 984129004470 roof hairpin; other site 984129004471 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 984129004472 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 984129004473 hypothetical protein; Validated; Region: PRK02101 984129004474 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 984129004475 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 984129004476 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 984129004477 peptide chain release factor 1; Validated; Region: prfA; PRK00591 984129004478 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 984129004479 This domain is found in peptide chain release factors; Region: PCRF; smart00937 984129004480 RF-1 domain; Region: RF-1; pfam00472 984129004481 glutamyl-tRNA reductase; Provisional; Region: PRK13940 984129004482 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 984129004483 tRNA; other site 984129004484 putative tRNA binding site [nucleotide binding]; other site 984129004485 putative NADP binding site [chemical binding]; other site 984129004486 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 984129004487 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 984129004488 TPR motif; other site 984129004489 binding surface 984129004490 Tetratricopeptide repeat; Region: TPR_16; pfam13432 984129004491 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 984129004492 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 984129004493 Trp docking motif [polypeptide binding]; other site 984129004494 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 984129004495 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 984129004496 putative substrate translocation pore; other site 984129004497 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 984129004498 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 984129004499 Mg2+ binding site [ion binding]; other site 984129004500 G-X-G motif; other site 984129004501 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 984129004502 anchoring element; other site 984129004503 dimer interface [polypeptide binding]; other site 984129004504 ATP binding site [chemical binding]; other site 984129004505 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 984129004506 active site 984129004507 metal binding site [ion binding]; metal-binding site 984129004508 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 984129004509 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 984129004510 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 984129004511 amidase catalytic site [active] 984129004512 Zn binding residues [ion binding]; other site 984129004513 substrate binding site [chemical binding]; other site 984129004514 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; cl00474 984129004515 active site 984129004516 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 984129004517 putative active site [active] 984129004518 Ap4A binding site [chemical binding]; other site 984129004519 nudix motif; other site 984129004520 putative metal binding site [ion binding]; other site 984129004521 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 984129004522 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 984129004523 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 984129004524 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 984129004525 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 984129004526 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 984129004527 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 984129004528 active site 984129004529 DNA binding site [nucleotide binding] 984129004530 Int/Topo IB signature motif; other site 984129004531 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 984129004532 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 984129004533 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14591 984129004534 RimM N-terminal domain; Region: RimM; pfam01782 984129004535 PRC-barrel domain; Region: PRC; pfam05239 984129004536 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 984129004537 S-adenosylmethionine synthetase; Validated; Region: PRK05250 984129004538 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 984129004539 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 984129004540 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 984129004541 Fatty acid desaturase; Region: FA_desaturase; pfam00487 984129004542 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 984129004543 Di-iron ligands [ion binding]; other site 984129004544 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 984129004545 UGMP family protein; Validated; Region: PRK09604 984129004546 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 984129004547 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 984129004548 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 984129004549 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 984129004550 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 984129004551 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 984129004552 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 984129004553 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 984129004554 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 984129004555 cleft; other site 984129004556 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 984129004557 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 984129004558 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 984129004559 DNA binding site [nucleotide binding] 984129004560 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 984129004561 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 984129004562 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 984129004563 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 984129004564 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 984129004565 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 984129004566 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 984129004567 RPB3 interaction site [polypeptide binding]; other site 984129004568 RPB1 interaction site [polypeptide binding]; other site 984129004569 RPB11 interaction site [polypeptide binding]; other site 984129004570 RPB10 interaction site [polypeptide binding]; other site 984129004571 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 984129004572 core dimer interface [polypeptide binding]; other site 984129004573 peripheral dimer interface [polypeptide binding]; other site 984129004574 L10 interface [polypeptide binding]; other site 984129004575 L11 interface [polypeptide binding]; other site 984129004576 putative EF-Tu interaction site [polypeptide binding]; other site 984129004577 putative EF-G interaction site [polypeptide binding]; other site 984129004578 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 984129004579 23S rRNA interface [nucleotide binding]; other site 984129004580 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 984129004581 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 984129004582 mRNA/rRNA interface [nucleotide binding]; other site 984129004583 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 984129004584 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 984129004585 23S rRNA interface [nucleotide binding]; other site 984129004586 L7/L12 interface [polypeptide binding]; other site 984129004587 putative thiostrepton binding site; other site 984129004588 L25 interface [polypeptide binding]; other site 984129004589 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 984129004590 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 984129004591 putative homodimer interface [polypeptide binding]; other site 984129004592 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 984129004593 heterodimer interface [polypeptide binding]; other site 984129004594 homodimer interface [polypeptide binding]; other site 984129004595 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 984129004596 elongation factor Tu; Reviewed; Region: PRK00049 984129004597 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 984129004598 G1 box; other site 984129004599 GEF interaction site [polypeptide binding]; other site 984129004600 GTP/Mg2+ binding site [chemical binding]; other site 984129004601 Switch I region; other site 984129004602 G2 box; other site 984129004603 G3 box; other site 984129004604 Switch II region; other site 984129004605 G4 box; other site 984129004606 G5 box; other site 984129004607 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 984129004608 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 984129004609 Antibiotic Binding Site [chemical binding]; other site 984129004610 AAA domain; Region: AAA_30; pfam13604 984129004611 Family description; Region: UvrD_C_2; pfam13538 984129004612 Mechanosensitive ion channel; Region: MS_channel; pfam00924 984129004613 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 984129004614 amphipathic channel; other site 984129004615 Asn-Pro-Ala signature motifs; other site 984129004616 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 984129004617 glycerol kinase; Provisional; Region: glpK; PRK00047 984129004618 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 984129004619 N- and C-terminal domain interface [polypeptide binding]; other site 984129004620 active site 984129004621 MgATP binding site [chemical binding]; other site 984129004622 catalytic site [active] 984129004623 metal binding site [ion binding]; metal-binding site 984129004624 glycerol binding site [chemical binding]; other site 984129004625 homotetramer interface [polypeptide binding]; other site 984129004626 homodimer interface [polypeptide binding]; other site 984129004627 FBP binding site [chemical binding]; other site 984129004628 protein IIAGlc interface [polypeptide binding]; other site 984129004629 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 984129004630 putative substrate translocation pore; other site 984129004631 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129004632 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 984129004633 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129004634 putative substrate translocation pore; other site 984129004635 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 984129004636 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984129004637 Walker A/P-loop; other site 984129004638 ATP binding site [chemical binding]; other site 984129004639 Q-loop/lid; other site 984129004640 ABC transporter signature motif; other site 984129004641 Walker B; other site 984129004642 D-loop; other site 984129004643 H-loop/switch region; other site 984129004644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 984129004645 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 984129004646 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 984129004647 Walker A/P-loop; other site 984129004648 ATP binding site [chemical binding]; other site 984129004649 Q-loop/lid; other site 984129004650 ABC transporter signature motif; other site 984129004651 Walker B; other site 984129004652 D-loop; other site 984129004653 H-loop/switch region; other site 984129004654 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 984129004655 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 984129004656 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 984129004657 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 984129004658 dimer interface [polypeptide binding]; other site 984129004659 conserved gate region; other site 984129004660 putative PBP binding loops; other site 984129004661 ABC-ATPase subunit interface; other site 984129004662 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 984129004663 dimer interface [polypeptide binding]; other site 984129004664 conserved gate region; other site 984129004665 putative PBP binding loops; other site 984129004666 ABC-ATPase subunit interface; other site 984129004667 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 984129004668 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 984129004669 peptide binding site [polypeptide binding]; other site 984129004670 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 984129004671 Part of AAA domain; Region: AAA_19; pfam13245 984129004672 Family description; Region: UvrD_C_2; pfam13538 984129004673 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 984129004674 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 984129004675 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 984129004676 GTP binding site [chemical binding]; other site 984129004677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 984129004678 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 984129004679 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 984129004680 G1 box; other site 984129004681 putative GEF interaction site [polypeptide binding]; other site 984129004682 GTP/Mg2+ binding site [chemical binding]; other site 984129004683 Switch I region; other site 984129004684 G2 box; other site 984129004685 G3 box; other site 984129004686 Switch II region; other site 984129004687 G4 box; other site 984129004688 G5 box; other site 984129004689 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 984129004690 thymidylate kinase; Validated; Region: tmk; PRK00698 984129004691 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 984129004692 TMP-binding site; other site 984129004693 ATP-binding site [chemical binding]; other site 984129004694 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 984129004695 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 984129004696 Nucleoside recognition; Region: Gate; pfam07670 984129004697 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984129004698 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 984129004699 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 984129004700 Nucleoside recognition; Region: Gate; pfam07670 984129004701 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 984129004702 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 984129004703 intersubunit interface [polypeptide binding]; other site 984129004704 active site 984129004705 catalytic residue [active] 984129004706 phosphopentomutase; Provisional; Region: PRK05362 984129004707 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 984129004708 pantothenate kinase; Reviewed; Region: PRK13324 984129004709 DNA polymerase I; Provisional; Region: PRK05755 984129004710 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 984129004711 active site 984129004712 metal binding site 1 [ion binding]; metal-binding site 984129004713 putative 5' ssDNA interaction site; other site 984129004714 metal binding site 3; metal-binding site 984129004715 metal binding site 2 [ion binding]; metal-binding site 984129004716 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 984129004717 putative DNA binding site [nucleotide binding]; other site 984129004718 putative metal binding site [ion binding]; other site 984129004719 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 984129004720 active site 984129004721 catalytic site [active] 984129004722 substrate binding site [chemical binding]; other site 984129004723 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 984129004724 active site 984129004725 DNA binding site [nucleotide binding] 984129004726 catalytic site [active] 984129004727 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 984129004728 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 984129004729 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 984129004730 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 984129004731 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 984129004732 Walker A/P-loop; other site 984129004733 ATP binding site [chemical binding]; other site 984129004734 Q-loop/lid; other site 984129004735 ABC transporter signature motif; other site 984129004736 Walker B; other site 984129004737 D-loop; other site 984129004738 H-loop/switch region; other site 984129004739 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 984129004740 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 984129004741 active site 984129004742 NTP binding site [chemical binding]; other site 984129004743 metal binding triad [ion binding]; metal-binding site 984129004744 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 984129004745 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 984129004746 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 984129004747 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 984129004748 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129004749 multidrug efflux protein; Reviewed; Region: PRK09579 984129004750 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129004751 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 984129004752 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 984129004753 putative substrate translocation pore; other site 984129004754 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 984129004755 dimer interface [polypeptide binding]; other site 984129004756 catalytic triad [active] 984129004757 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 984129004758 DDE superfamily endonuclease; Region: DDE_3; pfam13358 984129004759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 984129004760 ATP-grasp domain; Region: ATP-grasp_4; cl17255 984129004761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 984129004762 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 984129004763 dimer interface [polypeptide binding]; other site 984129004764 phosphorylation site [posttranslational modification] 984129004765 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 984129004766 ATP binding site [chemical binding]; other site 984129004767 Mg2+ binding site [ion binding]; other site 984129004768 G-X-G motif; other site 984129004769 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 984129004770 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 984129004771 putative NAD(P) binding site [chemical binding]; other site 984129004772 putative active site [active] 984129004773 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 984129004774 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 984129004775 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 984129004776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 984129004777 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 984129004778 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 984129004779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129004780 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 984129004781 Walker A motif; other site 984129004782 Walker A/P-loop; other site 984129004783 ATP binding site [chemical binding]; other site 984129004784 ATP binding site [chemical binding]; other site 984129004785 Walker B motif; other site 984129004786 aconitate hydratase; Validated; Region: PRK09277 984129004787 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 984129004788 substrate binding site [chemical binding]; other site 984129004789 ligand binding site [chemical binding]; other site 984129004790 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 984129004791 substrate binding site [chemical binding]; other site 984129004792 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 984129004793 HemN family oxidoreductase; Provisional; Region: PRK05660 984129004794 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 984129004795 FeS/SAM binding site; other site 984129004796 HemN C-terminal domain; Region: HemN_C; pfam06969 984129004797 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 984129004798 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 984129004799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 984129004800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 984129004801 Preprotein translocase SecG subunit; Region: SecG; pfam03840 984129004802 triosephosphate isomerase; Provisional; Region: PRK14567 984129004803 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 984129004804 substrate binding site [chemical binding]; other site 984129004805 dimer interface [polypeptide binding]; other site 984129004806 catalytic triad [active] 984129004807 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14320 984129004808 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 984129004809 active site 984129004810 substrate binding site [chemical binding]; other site 984129004811 metal binding site [ion binding]; metal-binding site 984129004812 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 984129004813 nucleotide binding site [chemical binding]; other site 984129004814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129004815 active site 984129004816 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 984129004817 E3 interaction surface; other site 984129004818 lipoyl attachment site [posttranslational modification]; other site 984129004819 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 984129004820 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 984129004821 E3 interaction surface; other site 984129004822 lipoyl attachment site [posttranslational modification]; other site 984129004823 e3 binding domain; Region: E3_binding; pfam02817 984129004824 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 984129004825 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 984129004826 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 984129004827 TPP-binding site [chemical binding]; other site 984129004828 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 984129004829 PYR/PP interface [polypeptide binding]; other site 984129004830 dimer interface [polypeptide binding]; other site 984129004831 TPP binding site [chemical binding]; other site 984129004832 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 984129004833 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 984129004834 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 984129004835 L-aspartate oxidase; Provisional; Region: PRK06175 984129004836 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 984129004837 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 984129004838 SdhC subunit interface [polypeptide binding]; other site 984129004839 proximal heme binding site [chemical binding]; other site 984129004840 cardiolipin binding site; other site 984129004841 Iron-sulfur protein interface; other site 984129004842 proximal quinone binding site [chemical binding]; other site 984129004843 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 984129004844 Iron-sulfur protein interface; other site 984129004845 proximal quinone binding site [chemical binding]; other site 984129004846 SdhD (CybS) interface [polypeptide binding]; other site 984129004847 proximal heme binding site [chemical binding]; other site 984129004848 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 984129004849 dimer interface [polypeptide binding]; other site 984129004850 Citrate synthase; Region: Citrate_synt; pfam00285 984129004851 active site 984129004852 citrylCoA binding site [chemical binding]; other site 984129004853 NADH binding [chemical binding]; other site 984129004854 cationic pore residues; other site 984129004855 oxalacetate/citrate binding site [chemical binding]; other site 984129004856 coenzyme A binding site [chemical binding]; other site 984129004857 catalytic triad [active] 984129004858 muropeptide transporter; Reviewed; Region: ampG; PRK11902 984129004859 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 984129004860 putative substrate translocation pore; other site 984129004861 superoxide dismutase; Provisional; Region: PRK10543 984129004862 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 984129004863 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 984129004864 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 984129004865 putative GSH binding site [chemical binding]; other site 984129004866 catalytic residues [active] 984129004867 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984129004868 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 984129004869 putative active site [active] 984129004870 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13452 984129004871 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 984129004872 gamma subunit interface [polypeptide binding]; other site 984129004873 epsilon subunit interface [polypeptide binding]; other site 984129004874 LBP interface [polypeptide binding]; other site 984129004875 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 984129004876 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984129004877 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 984129004878 alpha subunit interaction interface [polypeptide binding]; other site 984129004879 Walker A motif; other site 984129004880 ATP binding site [chemical binding]; other site 984129004881 Walker B motif; other site 984129004882 inhibitor binding site; inhibition site 984129004883 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984129004884 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 984129004885 core domain interface [polypeptide binding]; other site 984129004886 delta subunit interface [polypeptide binding]; other site 984129004887 epsilon subunit interface [polypeptide binding]; other site 984129004888 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 984129004889 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 984129004890 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 984129004891 beta subunit interaction interface [polypeptide binding]; other site 984129004892 Walker A motif; other site 984129004893 ATP binding site [chemical binding]; other site 984129004894 Walker B motif; other site 984129004895 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 984129004896 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 984129004897 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 984129004898 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 984129004899 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 984129004900 F0F1 ATP synthase subunit C; Provisional; Region: PRK13464 984129004901 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 984129004902 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 984129004903 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 984129004904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129004905 putative substrate translocation pore; other site 984129004906 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 984129004907 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 984129004908 RNA binding surface [nucleotide binding]; other site 984129004909 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 984129004910 active site 984129004911 Predicted ATPase [General function prediction only]; Region: COG1485 984129004912 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 984129004913 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 984129004914 putative substrate translocation pore; other site 984129004915 histidyl-tRNA synthetase; Region: hisS; TIGR00442 984129004916 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 984129004917 dimer interface [polypeptide binding]; other site 984129004918 motif 1; other site 984129004919 active site 984129004920 motif 2; other site 984129004921 motif 3; other site 984129004922 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 984129004923 anticodon binding site; other site 984129004924 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 984129004925 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 984129004926 translation initiation factor IF-2; Region: IF-2; TIGR00487 984129004927 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 984129004928 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 984129004929 G1 box; other site 984129004930 putative GEF interaction site [polypeptide binding]; other site 984129004931 GTP/Mg2+ binding site [chemical binding]; other site 984129004932 Switch I region; other site 984129004933 G2 box; other site 984129004934 G3 box; other site 984129004935 Switch II region; other site 984129004936 G4 box; other site 984129004937 G5 box; other site 984129004938 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 984129004939 Translation-initiation factor 2; Region: IF-2; pfam11987 984129004940 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 984129004941 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 984129004942 NusA N-terminal domain; Region: NusA_N; pfam08529 984129004943 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 984129004944 RNA binding site [nucleotide binding]; other site 984129004945 homodimer interface [polypeptide binding]; other site 984129004946 NusA-like KH domain; Region: KH_5; pfam13184 984129004947 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 984129004948 G-X-X-G motif; other site 984129004949 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 984129004950 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 984129004951 ribosome maturation protein RimP; Reviewed; Region: PRK00092 984129004952 hypothetical protein; Provisional; Region: PRK14641 984129004953 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 984129004954 putative oligomer interface [polypeptide binding]; other site 984129004955 putative RNA binding site [nucleotide binding]; other site 984129004956 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 984129004957 substrate binding site [chemical binding]; other site 984129004958 active site 984129004959 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 984129004960 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 984129004961 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 984129004962 Walker A motif; other site 984129004963 ATP binding site [chemical binding]; other site 984129004964 Walker B motif; other site 984129004965 arginine finger; other site 984129004966 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 984129004967 Membrane fusogenic activity; Region: BMFP; pfam04380 984129004968 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 984129004969 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984129004970 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 984129004971 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984129004972 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 984129004973 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 984129004974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 984129004975 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 984129004976 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 984129004977 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 984129004978 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 984129004979 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 984129004980 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 984129004981 NADH dehydrogenase subunit G; Validated; Region: PRK09129 984129004982 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 984129004983 catalytic loop [active] 984129004984 iron binding site [ion binding]; other site 984129004985 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 984129004986 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 984129004987 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 984129004988 SLBB domain; Region: SLBB; pfam10531 984129004989 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 984129004990 NADH dehydrogenase subunit E; Validated; Region: PRK07539 984129004991 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 984129004992 putative dimer interface [polypeptide binding]; other site 984129004993 [2Fe-2S] cluster binding site [ion binding]; other site 984129004994 NADH dehydrogenase subunit D; Validated; Region: PRK06075 984129004995 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 984129004996 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 984129004997 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 984129004998 NADH dehydrogenase subunit B; Validated; Region: PRK06411 984129004999 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 984129005000 ferric uptake regulator; Provisional; Region: fur; PRK09462 984129005001 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 984129005002 metal binding site 2 [ion binding]; metal-binding site 984129005003 putative DNA binding helix; other site 984129005004 metal binding site 1 [ion binding]; metal-binding site 984129005005 dimer interface [polypeptide binding]; other site 984129005006 structural Zn2+ binding site [ion binding]; other site 984129005007 IucA / IucC family; Region: IucA_IucC; pfam04183 984129005008 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 984129005009 Major Facilitator Superfamily; Region: MFS_1; pfam07690 984129005010 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 984129005011 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 984129005012 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 984129005013 dimer interface [polypeptide binding]; other site 984129005014 active site 984129005015 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129005016 catalytic residues [active] 984129005017 substrate binding site [chemical binding]; other site 984129005018 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 984129005019 putative substrate translocation pore; other site 984129005020 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 984129005021 Fatty acyltransferase-like subfamily of the 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: fatty_acyltransferase_like; cd01846 984129005022 active site 984129005023 oxyanion hole [active] 984129005024 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 984129005025 catalytic triad [active] 984129005026 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 984129005027 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 984129005028 GatB domain; Region: GatB_Yqey; smart00845 984129005029 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 984129005030 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 984129005031 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 984129005032 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 984129005033 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 984129005034 HlyD family secretion protein; Region: HlyD_3; pfam13437 984129005035 adenylosuccinate lyase; Provisional; Region: PRK07492 984129005036 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 984129005037 tetramer interface [polypeptide binding]; other site 984129005038 active site 984129005039 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 984129005040 active site 984129005041 catalytic residues [active] 984129005042 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 984129005043 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 984129005044 dimerization interface [polypeptide binding]; other site 984129005045 ATP binding site [chemical binding]; other site 984129005046 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 984129005047 dimerization interface [polypeptide binding]; other site 984129005048 ATP binding site [chemical binding]; other site 984129005049 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 984129005050 putative active site [active] 984129005051 catalytic triad [active] 984129005052 amidophosphoribosyltransferase; Provisional; Region: PRK09246 984129005053 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 984129005054 active site 984129005055 tetramer interface [polypeptide binding]; other site 984129005056 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 984129005057 active site 984129005058 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 984129005059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129005060 catalytic residue [active] 984129005061 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 984129005062 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 984129005063 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 984129005064 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 984129005065 putative protease; Provisional; Region: PRK15452 984129005066 Peptidase family U32; Region: Peptidase_U32; pfam01136 984129005067 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 984129005068 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 984129005069 putative substrate translocation pore; other site 984129005070 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 984129005071 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 984129005072 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 984129005073 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 984129005074 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 984129005075 Amino acid permease; Region: AA_permease_2; pfam13520 984129005076 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 984129005077 GTP1/OBG; Region: GTP1_OBG; pfam01018 984129005078 Obg GTPase; Region: Obg; cd01898 984129005079 G1 box; other site 984129005080 GTP/Mg2+ binding site [chemical binding]; other site 984129005081 Switch I region; other site 984129005082 G2 box; other site 984129005083 G3 box; other site 984129005084 Switch II region; other site 984129005085 G4 box; other site 984129005086 G5 box; other site 984129005087 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 984129005088 aromatic amino acid transport protein; Region: araaP; TIGR00837 984129005089 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 984129005090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 984129005091 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 984129005092 active site 984129005093 phosphorylation site [posttranslational modification] 984129005094 intermolecular recognition site; other site 984129005095 dimerization interface [polypeptide binding]; other site 984129005096 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 984129005097 DNA binding site [nucleotide binding] 984129005098 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 984129005099 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 984129005100 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 984129005101 Ligand Binding Site [chemical binding]; other site 984129005102 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 984129005103 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 984129005104 dimer interface [polypeptide binding]; other site 984129005105 phosphorylation site [posttranslational modification] 984129005106 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 984129005107 ATP binding site [chemical binding]; other site 984129005108 Mg2+ binding site [ion binding]; other site 984129005109 G-X-G motif; other site 984129005110 K+-transporting ATPase, c chain; Region: KdpC; cl00944 984129005111 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 984129005112 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 984129005113 Soluble P-type ATPase [General function prediction only]; Region: COG4087 984129005114 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 984129005115 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 984129005116 dimerization interface [polypeptide binding]; other site 984129005117 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 984129005118 ligand binding site [chemical binding]; other site 984129005119 NAD binding site [chemical binding]; other site 984129005120 catalytic site [active] 984129005121 aspartate aminotransferase; Provisional; Region: PRK05764 984129005122 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 984129005123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129005124 homodimer interface [polypeptide binding]; other site 984129005125 catalytic residue [active] 984129005126 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 984129005127 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 984129005128 dimer interface [polypeptide binding]; other site 984129005129 active site 984129005130 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 984129005131 catalytic residues [active] 984129005132 substrate binding site [chemical binding]; other site 984129005133 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 984129005134 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 984129005135 trimer interface [polypeptide binding]; other site 984129005136 active site 984129005137 substrate binding site [chemical binding]; other site 984129005138 CoA binding site [chemical binding]; other site 984129005139 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 984129005140 dihydrodipicolinate synthase; Region: dapA; TIGR00674 984129005141 dimer interface [polypeptide binding]; other site 984129005142 active site 984129005143 catalytic residue [active] 984129005144 dihydrodipicolinate reductase; Provisional; Region: PRK00048 984129005145 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 984129005146 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 984129005147 aspartate kinase III; Validated; Region: PRK09084 984129005148 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 984129005149 nucleotide binding site [chemical binding]; other site 984129005150 substrate binding site [chemical binding]; other site 984129005151 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 984129005152 lysine allosteric regulatory site; other site 984129005153 dimer interface [polypeptide binding]; other site 984129005154 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 984129005155 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 984129005156 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 984129005157 active site 984129005158 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129005159 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129005160 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129005161 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 984129005162 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 984129005163 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 984129005164 Cl- selectivity filter; other site 984129005165 Cl- binding residues [ion binding]; other site 984129005166 pore gating glutamate residue; other site 984129005167 dimer interface [polypeptide binding]; other site 984129005168 H+/Cl- coupling transport residue; other site 984129005169 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 984129005170 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 984129005171 active site 984129005172 Zn binding site [ion binding]; other site 984129005173 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 984129005174 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 984129005175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 984129005176 catalytic residue [active] 984129005177 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 984129005178 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 984129005179 substrate binding site [chemical binding]; other site 984129005180 active site 984129005181 catalytic residues [active] 984129005182 heterodimer interface [polypeptide binding]; other site 984129005183 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 984129005184 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 984129005185 Clp amino terminal domain; Region: Clp_N; pfam02861 984129005186 Clp amino terminal domain; Region: Clp_N; pfam02861 984129005187 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 984129005188 Walker A motif; other site 984129005189 ATP binding site [chemical binding]; other site 984129005190 Walker B motif; other site 984129005191 arginine finger; other site 984129005192 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 984129005193 Walker A motif; other site 984129005194 ATP binding site [chemical binding]; other site 984129005195 Walker B motif; other site 984129005196 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 984129005197 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 984129005198 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 984129005199 active site 984129005200 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 984129005201 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 984129005202 ATP-grasp domain; Region: ATP-grasp; pfam02222 984129005203 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 984129005204 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 984129005205 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 984129005206 4Fe-4S binding domain; Region: Fer4; cl02805 984129005207 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 984129005208 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 984129005209 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984129005210 putative acyl-acceptor binding pocket; other site 984129005211 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 984129005212 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 984129005213 putative acyl-acceptor binding pocket; other site 984129005214 hypothetical protein; Provisional; Region: PRK05421 984129005215 putative catalytic site [active] 984129005216 putative metal binding site [ion binding]; other site 984129005217 putative phosphate binding site [ion binding]; other site 984129005218 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14854 984129005219 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 984129005220 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 984129005221 [2Fe-2S] cluster binding site [ion binding]; other site 984129005222 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 984129005223 hydrophobic ligand binding site; other site 984129005224 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 984129005225 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 984129005226 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129005227 putative substrate translocation pore; other site 984129005228 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 984129005229 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 984129005230 catalytic triad [active] 984129005231 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 984129005232 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 984129005233 putative ligand binding site [chemical binding]; other site 984129005234 putative NAD binding site [chemical binding]; other site 984129005235 catalytic site [active] 984129005236 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 984129005237 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 984129005238 Transposase domain (DUF772); Region: DUF772; pfam05598 984129005239 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 984129005240 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 984129005241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 984129005242 Walker A/P-loop; other site 984129005243 ATP binding site [chemical binding]; other site 984129005244 Q-loop/lid; other site 984129005245 ABC transporter signature motif; other site 984129005246 Walker B; other site 984129005247 D-loop; other site 984129005248 H-loop/switch region; other site 984129005249 ABC transporter; Region: ABC_tran_2; pfam12848 984129005250 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 984129005251 metabolite-proton symporter; Region: 2A0106; TIGR00883 984129005252 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 984129005253 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 984129005254 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 984129005255 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 984129005256 TrkA-N domain; Region: TrkA_N; pfam02254 984129005257 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 984129005258 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 984129005259 aminopeptidase N; Provisional; Region: pepN; PRK14015 984129005260 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 984129005261 active site 984129005262 Zn binding site [ion binding]; other site 984129005263 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 984129005264 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 984129005265 putative dimer interface [polypeptide binding]; other site 984129005266 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 984129005267 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 984129005268 active site 984129005269 ribulose/triose binding site [chemical binding]; other site 984129005270 phosphate binding site [ion binding]; other site 984129005271 substrate (anthranilate) binding pocket [chemical binding]; other site 984129005272 product (indole) binding pocket [chemical binding]; other site 984129005273 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 984129005274 active site 984129005275 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 984129005276 HD domain; Region: HD_3; pfam13023 984129005277 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 984129005278 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 984129005279 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 984129005280 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 984129005281 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 984129005282 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 984129005283 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 984129005284 Glutamine amidotransferase class-I; Region: GATase; pfam00117 984129005285 glutamine binding [chemical binding]; other site 984129005286 catalytic triad [active] 984129005287 anthranilate synthase component I; Provisional; Region: PRK13564 984129005288 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 984129005289 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 984129005290 Trp repressor protein; Region: Trp_repressor; cl17266 984129005291 ribonuclease G; Provisional; Region: PRK11712 984129005292 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 984129005293 homodimer interface [polypeptide binding]; other site 984129005294 oligonucleotide binding site [chemical binding]; other site