-- dump date 20140619_231629 -- class Genbank::misc_feature -- table misc_feature_note -- id note 314260000001 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 314260000002 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 314260000003 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 314260000004 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260000005 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 314260000006 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 314260000007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260000008 Coenzyme A binding pocket [chemical binding]; other site 314260000009 Transposase; Region: HTH_Tnp_1; cl17663 314260000010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 314260000011 Integrase core domain; Region: rve; pfam00665 314260000012 Integrase core domain; Region: rve_3; pfam13683 314260000013 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 314260000014 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 314260000015 dimer interface [polypeptide binding]; other site 314260000016 ssDNA binding site [nucleotide binding]; other site 314260000017 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314260000018 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 314260000019 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 314260000020 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 314260000021 Walker A motif; other site 314260000022 ATP binding site [chemical binding]; other site 314260000023 Walker B motif; other site 314260000024 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 314260000025 TrwC relaxase; Region: TrwC; pfam08751 314260000026 AAA domain; Region: AAA_30; pfam13604 314260000027 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 314260000028 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 314260000029 putative Mg++ binding site [ion binding]; other site 314260000030 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 314260000031 nucleotide binding region [chemical binding]; other site 314260000032 ATP-binding site [chemical binding]; other site 314260000033 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 314260000034 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 314260000035 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314260000036 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 314260000037 tellurite resistance protein terB; Region: terB; cd07176 314260000038 putative metal binding site [ion binding]; other site 314260000039 AAA domain; Region: AAA_21; pfam13304 314260000040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260000041 ABC transporter signature motif; other site 314260000042 Walker B; other site 314260000043 D-loop; other site 314260000044 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 314260000045 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 314260000046 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 314260000047 ATP binding site [chemical binding]; other site 314260000048 substrate interface [chemical binding]; other site 314260000049 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 314260000050 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 314260000051 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 314260000052 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 314260000053 F plasmid transfer operon protein; Region: TraF; pfam13728 314260000054 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 314260000055 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 314260000056 TraU protein; Region: TraU; pfam06834 314260000057 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 314260000058 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 314260000059 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 314260000060 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; cl11515 314260000061 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 314260000062 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 314260000063 Domain of unknown function DUF87; Region: DUF87; pfam01935 314260000064 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 314260000065 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 314260000066 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 314260000067 dimerization domain [polypeptide binding]; other site 314260000068 dimer interface [polypeptide binding]; other site 314260000069 catalytic residues [active] 314260000070 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 314260000071 TraK protein; Region: TraK; pfam06586 314260000072 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 314260000073 TraE protein; Region: TraE; pfam05309 314260000074 TraL protein; Region: TraL; pfam07178 314260000075 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260000076 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 314260000077 salt bridge; other site 314260000078 non-specific DNA binding site [nucleotide binding]; other site 314260000079 sequence-specific DNA binding site [nucleotide binding]; other site 314260000080 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 314260000081 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 314260000082 active site 314260000083 DNA binding site [nucleotide binding] 314260000084 Int/Topo IB signature motif; other site 314260000085 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 314260000086 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 314260000087 ATP binding site [chemical binding]; other site 314260000088 Mg++ binding site [ion binding]; other site 314260000089 motif III; other site 314260000090 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 314260000091 nucleotide binding region [chemical binding]; other site 314260000092 ATP-binding site [chemical binding]; other site 314260000093 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 314260000094 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 314260000095 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 314260000096 putative GSH binding site [chemical binding]; other site 314260000097 catalytic residues [active] 314260000098 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 314260000099 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 314260000100 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 314260000101 RNA binding surface [nucleotide binding]; other site 314260000102 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 314260000103 catalytic core [active] 314260000104 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260000105 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 314260000106 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 314260000107 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 314260000108 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 314260000109 ATP binding site [chemical binding]; other site 314260000110 putative Mg++ binding site [ion binding]; other site 314260000111 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 314260000112 nucleotide binding region [chemical binding]; other site 314260000113 ATP-binding site [chemical binding]; other site 314260000114 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 314260000115 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 314260000116 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 314260000117 dimerization interface [polypeptide binding]; other site 314260000118 DPS ferroxidase diiron center [ion binding]; other site 314260000119 ion pore; other site 314260000120 aspartate aminotransferase; Provisional; Region: PRK05764 314260000121 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 314260000122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260000123 homodimer interface [polypeptide binding]; other site 314260000124 catalytic residue [active] 314260000125 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314260000126 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260000127 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 314260000128 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 314260000129 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 314260000130 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 314260000131 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 314260000132 replicative DNA helicase; Provisional; Region: PRK09165 314260000133 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 314260000134 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 314260000135 Walker A motif; other site 314260000136 ATP binding site [chemical binding]; other site 314260000137 Walker B motif; other site 314260000138 DNA binding loops [nucleotide binding] 314260000139 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 314260000140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 314260000141 active site 314260000142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314260000143 dimer interface [polypeptide binding]; other site 314260000144 substrate binding site [chemical binding]; other site 314260000145 catalytic residues [active] 314260000146 ATP12 chaperone protein; Region: ATP12; pfam07542 314260000147 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314260000148 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 314260000149 RNA binding surface [nucleotide binding]; other site 314260000150 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314260000151 active site 314260000152 CrcB-like protein; Region: CRCB; pfam02537 314260000153 shikimate kinase; Provisional; Region: PRK13946 314260000154 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 314260000155 ADP binding site [chemical binding]; other site 314260000156 magnesium binding site [ion binding]; other site 314260000157 putative shikimate binding site; other site 314260000158 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 314260000159 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 314260000160 active site 314260000161 dimer interface [polypeptide binding]; other site 314260000162 metal binding site [ion binding]; metal-binding site 314260000163 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 314260000164 Domain of unknown function DUF21; Region: DUF21; pfam01595 314260000165 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 314260000166 Transporter associated domain; Region: CorC_HlyC; smart01091 314260000167 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 314260000168 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260000169 putative substrate translocation pore; other site 314260000170 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 314260000171 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 314260000172 HSP70 interaction site [polypeptide binding]; other site 314260000173 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260000174 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260000175 Predicted membrane protein [Function unknown]; Region: COG3671 314260000176 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314260000177 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260000178 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260000179 ABC transporter; Region: ABC_tran_2; pfam12848 314260000180 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260000181 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 314260000182 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 314260000183 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 314260000184 aldolase II superfamily protein; Provisional; Region: PRK07044 314260000185 intersubunit interface [polypeptide binding]; other site 314260000186 active site 314260000187 Zn2+ binding site [ion binding]; other site 314260000188 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 314260000189 ATP-NAD kinase; Region: NAD_kinase; pfam01513 314260000190 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314260000191 FAD dependent oxidoreductase; Region: DAO; pfam01266 314260000192 Protein of unknown function (DUF330); Region: DUF330; cl01135 314260000193 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 314260000194 mce related protein; Region: MCE; pfam02470 314260000195 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 314260000196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260000197 Walker A/P-loop; other site 314260000198 ATP binding site [chemical binding]; other site 314260000199 Q-loop/lid; other site 314260000200 ABC transporter signature motif; other site 314260000201 Walker B; other site 314260000202 D-loop; other site 314260000203 H-loop/switch region; other site 314260000204 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 314260000205 Permease; Region: Permease; pfam02405 314260000206 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 314260000207 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 314260000208 cyclase homology domain; Region: CHD; cd07302 314260000209 nucleotidyl binding site; other site 314260000210 dimer interface [polypeptide binding]; other site 314260000211 metal binding site [ion binding]; metal-binding site 314260000212 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 314260000213 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 314260000214 TAP-like protein; Region: Abhydrolase_4; pfam08386 314260000215 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 314260000216 Na2 binding site [ion binding]; other site 314260000217 putative substrate binding site 1 [chemical binding]; other site 314260000218 Na binding site 1 [ion binding]; other site 314260000219 putative substrate binding site 2 [chemical binding]; other site 314260000220 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 314260000221 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 314260000222 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314260000223 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314260000224 rod shape-determining protein MreC; Provisional; Region: PRK13922 314260000225 rod shape-determining protein MreC; Region: MreC; pfam04085 314260000226 rod shape-determining protein MreB; Provisional; Region: PRK13927 314260000227 MreB and similar proteins; Region: MreB_like; cd10225 314260000228 nucleotide binding site [chemical binding]; other site 314260000229 Mg binding site [ion binding]; other site 314260000230 putative protofilament interaction site [polypeptide binding]; other site 314260000231 RodZ interaction site [polypeptide binding]; other site 314260000232 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314260000233 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314260000234 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 314260000235 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 314260000236 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 314260000237 catalytic triad [active] 314260000238 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 314260000239 dinuclear metal binding motif [ion binding]; other site 314260000240 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260000241 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260000242 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 314260000243 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 314260000244 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 314260000245 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 314260000246 catalytic residues [active] 314260000247 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 314260000248 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 314260000249 FMN binding site [chemical binding]; other site 314260000250 active site 314260000251 catalytic residues [active] 314260000252 substrate binding site [chemical binding]; other site 314260000253 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 314260000254 seryl-tRNA synthetase; Provisional; Region: PRK05431 314260000255 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 314260000256 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 314260000257 dimer interface [polypeptide binding]; other site 314260000258 active site 314260000259 motif 1; other site 314260000260 motif 2; other site 314260000261 motif 3; other site 314260000262 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 314260000263 Protein of unknown function, DUF482; Region: DUF482; pfam04339 314260000264 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 314260000265 HIT family signature motif; other site 314260000266 catalytic residue [active] 314260000267 classical (c) SDRs; Region: SDR_c; cd05233 314260000268 NAD(P) binding site [chemical binding]; other site 314260000269 active site 314260000270 Transcriptional regulators [Transcription]; Region: MarR; COG1846 314260000271 MarR family; Region: MarR_2; cl17246 314260000272 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 314260000273 dimer interface [polypeptide binding]; other site 314260000274 allosteric magnesium binding site [ion binding]; other site 314260000275 active site 314260000276 aspartate-rich active site metal binding site; other site 314260000277 Schiff base residues; other site 314260000278 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 314260000279 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314260000280 TrkA-C domain; Region: TrkA_C; pfam02080 314260000281 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 314260000282 TrkA-C domain; Region: TrkA_C; pfam02080 314260000283 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314260000284 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 314260000285 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 314260000286 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 314260000287 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 314260000288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260000289 NAD(P) binding site [chemical binding]; other site 314260000290 active site 314260000291 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 314260000292 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 314260000293 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 314260000294 Walker A motif; other site 314260000295 ATP binding site [chemical binding]; other site 314260000296 Walker B motif; other site 314260000297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314260000298 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 314260000299 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 314260000300 oligomer interface [polypeptide binding]; other site 314260000301 active site residues [active] 314260000302 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 314260000303 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 314260000304 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 314260000305 S-adenosylmethionine binding site [chemical binding]; other site 314260000306 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 314260000307 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 314260000308 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260000309 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314260000310 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 314260000311 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 314260000312 NAD(P) binding site [chemical binding]; other site 314260000313 catalytic residues [active] 314260000314 short chain dehydrogenase; Provisional; Region: PRK12828 314260000315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260000316 NAD(P) binding site [chemical binding]; other site 314260000317 active site 314260000318 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 314260000319 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 314260000320 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 314260000321 putative catalytic residues [active] 314260000322 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 314260000323 Clp amino terminal domain; Region: Clp_N; pfam02861 314260000324 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 314260000325 Walker A motif; other site 314260000326 ATP binding site [chemical binding]; other site 314260000327 Walker B motif; other site 314260000328 arginine finger; other site 314260000329 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 314260000330 Walker A motif; other site 314260000331 ATP binding site [chemical binding]; other site 314260000332 Walker B motif; other site 314260000333 arginine finger; other site 314260000334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314260000335 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 314260000336 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 314260000337 active site 314260000338 substrate binding site [chemical binding]; other site 314260000339 metal binding site [ion binding]; metal-binding site 314260000340 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 314260000341 catalytic residues [active] 314260000342 dimer interface [polypeptide binding]; other site 314260000343 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 314260000344 malate dehydrogenase; Provisional; Region: PRK05442 314260000345 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 314260000346 NAD(P) binding site [chemical binding]; other site 314260000347 dimer interface [polypeptide binding]; other site 314260000348 malate binding site [chemical binding]; other site 314260000349 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260000350 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314260000351 putative C-terminal domain interface [polypeptide binding]; other site 314260000352 putative GSH binding site (G-site) [chemical binding]; other site 314260000353 putative dimer interface [polypeptide binding]; other site 314260000354 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 314260000355 dimer interface [polypeptide binding]; other site 314260000356 N-terminal domain interface [polypeptide binding]; other site 314260000357 putative substrate binding pocket (H-site) [chemical binding]; other site 314260000358 prolyl-tRNA synthetase; Provisional; Region: PRK12325 314260000359 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 314260000360 dimer interface [polypeptide binding]; other site 314260000361 motif 1; other site 314260000362 active site 314260000363 motif 2; other site 314260000364 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 314260000365 active site 314260000366 motif 3; other site 314260000367 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 314260000368 anticodon binding site; other site 314260000369 PilZ domain; Region: PilZ; pfam07238 314260000370 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260000371 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 314260000372 active site 314260000373 phosphorylation site [posttranslational modification] 314260000374 intermolecular recognition site; other site 314260000375 dimerization interface [polypeptide binding]; other site 314260000376 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314260000377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314260000378 metal binding site [ion binding]; metal-binding site 314260000379 active site 314260000380 I-site; other site 314260000381 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 314260000382 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 314260000383 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260000384 putative active site [active] 314260000385 heme pocket [chemical binding]; other site 314260000386 PAS domain S-box; Region: sensory_box; TIGR00229 314260000387 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314260000388 GAF domain; Region: GAF; pfam01590 314260000389 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260000390 PAS fold; Region: PAS_3; pfam08447 314260000391 putative active site [active] 314260000392 heme pocket [chemical binding]; other site 314260000393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260000394 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 314260000395 ATP binding site [chemical binding]; other site 314260000396 Mg2+ binding site [ion binding]; other site 314260000397 G-X-G motif; other site 314260000398 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260000399 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 314260000400 active site 314260000401 phosphorylation site [posttranslational modification] 314260000402 intermolecular recognition site; other site 314260000403 dimerization interface [polypeptide binding]; other site 314260000404 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 314260000405 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314260000406 active site 314260000407 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 314260000408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 314260000409 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 314260000410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 314260000411 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 314260000412 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 314260000413 Response regulator receiver domain; Region: Response_reg; pfam00072 314260000414 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 314260000415 active site 314260000416 phosphorylation site [posttranslational modification] 314260000417 intermolecular recognition site; other site 314260000418 dimerization interface [polypeptide binding]; other site 314260000419 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 314260000420 Transposase; Region: HTH_Tnp_1; pfam01527 314260000421 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_2; cd03814 314260000422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260000423 putative phosphate acyltransferase; Provisional; Region: PRK05331 314260000424 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 314260000425 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 314260000426 dimer interface [polypeptide binding]; other site 314260000427 active site 314260000428 CoA binding pocket [chemical binding]; other site 314260000429 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 314260000430 IHF dimer interface [polypeptide binding]; other site 314260000431 IHF - DNA interface [nucleotide binding]; other site 314260000432 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 314260000433 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 314260000434 DNA binding residues [nucleotide binding] 314260000435 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 314260000436 NAD synthetase; Provisional; Region: PRK13981 314260000437 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 314260000438 multimer interface [polypeptide binding]; other site 314260000439 active site 314260000440 catalytic triad [active] 314260000441 protein interface 1 [polypeptide binding]; other site 314260000442 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 314260000443 homodimer interface [polypeptide binding]; other site 314260000444 NAD binding pocket [chemical binding]; other site 314260000445 ATP binding pocket [chemical binding]; other site 314260000446 Mg binding site [ion binding]; other site 314260000447 active-site loop [active] 314260000448 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 314260000449 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 314260000450 inhibitor-cofactor binding pocket; inhibition site 314260000451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260000452 catalytic residue [active] 314260000453 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 314260000454 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 314260000455 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 314260000456 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314260000457 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 314260000458 RNA binding surface [nucleotide binding]; other site 314260000459 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 314260000460 putative metal binding site [ion binding]; other site 314260000461 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 314260000462 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 314260000463 ssDNA binding site; other site 314260000464 generic binding surface II; other site 314260000465 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 314260000466 ATP binding site [chemical binding]; other site 314260000467 putative Mg++ binding site [ion binding]; other site 314260000468 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 314260000469 nucleotide binding region [chemical binding]; other site 314260000470 ATP-binding site [chemical binding]; other site 314260000471 Uncharacterized conserved protein [Function unknown]; Region: COG2928 314260000472 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314260000473 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 314260000474 active site 314260000475 phosphorylation site [posttranslational modification] 314260000476 intermolecular recognition site; other site 314260000477 dimerization interface [polypeptide binding]; other site 314260000478 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 314260000479 Walker A motif; other site 314260000480 ATP binding site [chemical binding]; other site 314260000481 Walker B motif; other site 314260000482 arginine finger; other site 314260000483 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314260000484 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 314260000485 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314260000486 dimerization interface [polypeptide binding]; other site 314260000487 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 314260000488 dimer interface [polypeptide binding]; other site 314260000489 phosphorylation site [posttranslational modification] 314260000490 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 314260000491 ATP binding site [chemical binding]; other site 314260000492 Mg2+ binding site [ion binding]; other site 314260000493 G-X-G motif; other site 314260000494 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 314260000495 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 314260000496 FMN binding site [chemical binding]; other site 314260000497 active site 314260000498 catalytic residues [active] 314260000499 substrate binding site [chemical binding]; other site 314260000500 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 314260000501 CoenzymeA binding site [chemical binding]; other site 314260000502 subunit interaction site [polypeptide binding]; other site 314260000503 PHB binding site; other site 314260000504 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314260000505 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 314260000506 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 314260000507 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 314260000508 Fe-S cluster binding site [ion binding]; other site 314260000509 active site 314260000510 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 314260000511 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 314260000512 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314260000513 catalytic residue [active] 314260000514 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 314260000515 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 314260000516 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314260000517 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 314260000518 putative DNA binding site [nucleotide binding]; other site 314260000519 putative Zn2+ binding site [ion binding]; other site 314260000520 AsnC family; Region: AsnC_trans_reg; pfam01037 314260000521 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 314260000522 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314260000523 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314260000524 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 314260000525 EamA-like transporter family; Region: EamA; pfam00892 314260000526 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 314260000527 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 314260000528 Mg2+ binding site [ion binding]; other site 314260000529 G-X-G motif; other site 314260000530 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 314260000531 anchoring element; other site 314260000532 dimer interface [polypeptide binding]; other site 314260000533 ATP binding site [chemical binding]; other site 314260000534 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 314260000535 active site 314260000536 putative metal-binding site [ion binding]; other site 314260000537 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314260000538 recombination protein F; Reviewed; Region: recF; PRK00064 314260000539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260000540 Walker A/P-loop; other site 314260000541 ATP binding site [chemical binding]; other site 314260000542 Q-loop/lid; other site 314260000543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260000544 ABC transporter signature motif; other site 314260000545 Walker B; other site 314260000546 D-loop; other site 314260000547 H-loop/switch region; other site 314260000548 DNA polymerase III subunit beta; Validated; Region: PRK05643 314260000549 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 314260000550 putative DNA binding surface [nucleotide binding]; other site 314260000551 dimer interface [polypeptide binding]; other site 314260000552 beta-clamp/clamp loader binding surface; other site 314260000553 beta-clamp/translesion DNA polymerase binding surface; other site 314260000554 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 314260000555 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 314260000556 Walker A motif; other site 314260000557 ATP binding site [chemical binding]; other site 314260000558 Walker B motif; other site 314260000559 arginine finger; other site 314260000560 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 314260000561 DnaA box-binding interface [nucleotide binding]; other site 314260000562 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 314260000563 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 314260000564 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 314260000565 DNA binding site [nucleotide binding] 314260000566 catalytic residue [active] 314260000567 H2TH interface [polypeptide binding]; other site 314260000568 putative catalytic residues [active] 314260000569 turnover-facilitating residue; other site 314260000570 intercalation triad [nucleotide binding]; other site 314260000571 8OG recognition residue [nucleotide binding]; other site 314260000572 putative reading head residues; other site 314260000573 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 314260000574 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314260000575 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 314260000576 Active site serine [active] 314260000577 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 314260000578 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 314260000579 ring oligomerisation interface [polypeptide binding]; other site 314260000580 ATP/Mg binding site [chemical binding]; other site 314260000581 stacking interactions; other site 314260000582 hinge regions; other site 314260000583 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 314260000584 oligomerisation interface [polypeptide binding]; other site 314260000585 mobile loop; other site 314260000586 roof hairpin; other site 314260000587 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 314260000588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314260000589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314260000590 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 314260000591 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 314260000592 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 314260000593 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 314260000594 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314260000595 putative NAD(P) binding site [chemical binding]; other site 314260000596 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 314260000597 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 314260000598 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 314260000599 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 314260000600 Na binding site [ion binding]; other site 314260000601 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 314260000602 nucleoside/Zn binding site; other site 314260000603 dimer interface [polypeptide binding]; other site 314260000604 catalytic motif [active] 314260000605 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 314260000606 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 314260000607 NAD(P) binding site [chemical binding]; other site 314260000608 homotetramer interface [polypeptide binding]; other site 314260000609 homodimer interface [polypeptide binding]; other site 314260000610 active site 314260000611 putative acyltransferase; Provisional; Region: PRK05790 314260000612 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 314260000613 dimer interface [polypeptide binding]; other site 314260000614 active site 314260000615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 314260000616 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 314260000617 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 314260000618 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 314260000619 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 314260000620 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 314260000621 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 314260000622 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314260000623 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 314260000624 active site 314260000625 dimer interface [polypeptide binding]; other site 314260000626 motif 1; other site 314260000627 motif 2; other site 314260000628 motif 3; other site 314260000629 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 314260000630 anticodon binding site; other site 314260000631 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314260000632 Haemolytic domain; Region: Haemolytic; pfam01809 314260000633 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 314260000634 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 314260000635 trimerization site [polypeptide binding]; other site 314260000636 active site 314260000637 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 314260000638 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 314260000639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314260000640 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 314260000641 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 314260000642 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 314260000643 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260000644 active site 314260000645 HIGH motif; other site 314260000646 nucleotide binding site [chemical binding]; other site 314260000647 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 314260000648 KMSKS motif; other site 314260000649 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 314260000650 tRNA binding surface [nucleotide binding]; other site 314260000651 anticodon binding site; other site 314260000652 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 314260000653 GTP cyclohydrolase I; Provisional; Region: PLN03044 314260000654 active site 314260000655 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 314260000656 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 314260000657 Ligand binding site; other site 314260000658 Putative Catalytic site; other site 314260000659 DXD motif; other site 314260000660 Predicted membrane protein [Function unknown]; Region: COG2246 314260000661 GtrA-like protein; Region: GtrA; pfam04138 314260000662 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 314260000663 O-Antigen ligase; Region: Wzy_C; pfam04932 314260000664 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314260000665 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 314260000666 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314260000667 Ligand binding site; other site 314260000668 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314260000669 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 314260000670 active site 314260000671 hypothetical protein; Validated; Region: PRK09039 314260000672 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314260000673 ligand binding site [chemical binding]; other site 314260000674 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314260000675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260000676 Coenzyme A binding pocket [chemical binding]; other site 314260000677 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 314260000678 active site 314260000679 catalytic triad [active] 314260000680 oxyanion hole [active] 314260000681 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 314260000682 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 314260000683 RNA binding site [nucleotide binding]; other site 314260000684 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 314260000685 RNA binding site [nucleotide binding]; other site 314260000686 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 314260000687 RNA binding site [nucleotide binding]; other site 314260000688 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 314260000689 RNA binding site [nucleotide binding]; other site 314260000690 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 314260000691 RNA binding site [nucleotide binding]; other site 314260000692 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 314260000693 RNA binding site [nucleotide binding]; other site 314260000694 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 314260000695 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 314260000696 heme binding site [chemical binding]; other site 314260000697 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 314260000698 GTP-binding protein Der; Reviewed; Region: PRK00093 314260000699 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 314260000700 G1 box; other site 314260000701 GTP/Mg2+ binding site [chemical binding]; other site 314260000702 Switch I region; other site 314260000703 G2 box; other site 314260000704 Switch II region; other site 314260000705 G3 box; other site 314260000706 G4 box; other site 314260000707 G5 box; other site 314260000708 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 314260000709 G1 box; other site 314260000710 GTP/Mg2+ binding site [chemical binding]; other site 314260000711 Switch I region; other site 314260000712 G2 box; other site 314260000713 G3 box; other site 314260000714 Switch II region; other site 314260000715 G4 box; other site 314260000716 G5 box; other site 314260000717 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 314260000718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260000719 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260000720 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314260000721 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314260000722 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 314260000723 DHH family; Region: DHH; pfam01368 314260000724 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314260000725 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 314260000726 ATP binding site [chemical binding]; other site 314260000727 putative Mg++ binding site [ion binding]; other site 314260000728 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 314260000729 nucleotide binding region [chemical binding]; other site 314260000730 ATP-binding site [chemical binding]; other site 314260000731 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 314260000732 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 314260000733 catalytic residues [active] 314260000734 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 314260000735 putative DNA binding helix; other site 314260000736 metal binding site 2 [ion binding]; metal-binding site 314260000737 metal binding site 1 [ion binding]; metal-binding site 314260000738 dimer interface [polypeptide binding]; other site 314260000739 structural Zn2+ binding site [ion binding]; other site 314260000740 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 314260000741 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 314260000742 catalytic triad [active] 314260000743 enoyl-CoA hydratase; Provisional; Region: PRK06688 314260000744 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 314260000745 substrate binding site [chemical binding]; other site 314260000746 oxyanion hole (OAH) forming residues; other site 314260000747 trimer interface [polypeptide binding]; other site 314260000748 Uncharacterized conserved protein [Function unknown]; Region: COG2968 314260000749 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 314260000750 serine acetyltransferase; Provisional; Region: cysE; PRK11132 314260000751 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 314260000752 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 314260000753 trimer interface [polypeptide binding]; other site 314260000754 active site 314260000755 substrate binding site [chemical binding]; other site 314260000756 CoA binding site [chemical binding]; other site 314260000757 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 314260000758 ADP-ribose binding site [chemical binding]; other site 314260000759 dimer interface [polypeptide binding]; other site 314260000760 active site 314260000761 nudix motif; other site 314260000762 metal binding site [ion binding]; metal-binding site 314260000763 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 314260000764 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 314260000765 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260000766 putative active site [active] 314260000767 metal binding site [ion binding]; metal-binding site 314260000768 homodimer binding site [polypeptide binding]; other site 314260000769 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314260000770 Methyltransferase domain; Region: Methyltransf_12; pfam08242 314260000771 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 314260000772 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 314260000773 tetramer interface; other site 314260000774 active site 314260000775 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 314260000776 4Fe-4S binding domain; Region: Fer4; pfam00037 314260000777 4Fe-4S binding domain; Region: Fer4; pfam00037 314260000778 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 314260000779 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 314260000780 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 314260000781 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260000782 catalytic residue [active] 314260000783 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 314260000784 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 314260000785 ligand binding site [chemical binding]; other site 314260000786 NAD binding site [chemical binding]; other site 314260000787 dimerization interface [polypeptide binding]; other site 314260000788 catalytic site [active] 314260000789 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 314260000790 putative L-serine binding site [chemical binding]; other site 314260000791 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 314260000792 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314260000793 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 314260000794 motif II; other site 314260000795 NADH dehydrogenase subunit G; Validated; Region: PRK09130 314260000796 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 314260000797 catalytic loop [active] 314260000798 iron binding site [ion binding]; other site 314260000799 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 314260000800 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 314260000801 molybdopterin cofactor binding site; other site 314260000802 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 314260000803 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 314260000804 ligand binding site [chemical binding]; other site 314260000805 flexible hinge region; other site 314260000806 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 314260000807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314260000808 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260000809 Protein of unknown function (DUF962); Region: DUF962; pfam06127 314260000810 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 314260000811 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 314260000812 Ligand Binding Site [chemical binding]; other site 314260000813 Predicted acetyltransferase [General function prediction only]; Region: COG3153 314260000814 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 314260000815 SLBB domain; Region: SLBB; pfam10531 314260000816 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 314260000817 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 314260000818 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 314260000819 putative dimer interface [polypeptide binding]; other site 314260000820 [2Fe-2S] cluster binding site [ion binding]; other site 314260000821 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 314260000822 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260000823 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 314260000824 dimer interface [polypeptide binding]; other site 314260000825 phosphorylation site [posttranslational modification] 314260000826 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 314260000827 ATP binding site [chemical binding]; other site 314260000828 Mg2+ binding site [ion binding]; other site 314260000829 G-X-G motif; other site 314260000830 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 314260000831 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 314260000832 apolar tunnel; other site 314260000833 heme binding site [chemical binding]; other site 314260000834 dimerization interface [polypeptide binding]; other site 314260000835 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 314260000836 UbiA prenyltransferase family; Region: UbiA; pfam01040 314260000837 Protein of unknown function (DUF423); Region: DUF423; pfam04241 314260000838 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 314260000839 SelR domain; Region: SelR; pfam01641 314260000840 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 314260000841 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314260000842 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 314260000843 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 314260000844 active site 314260000845 DNA binding site [nucleotide binding] 314260000846 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 314260000847 DNA binding site [nucleotide binding] 314260000848 Predicted permeases [General function prediction only]; Region: COG0679 314260000849 excinuclease ABC subunit B; Provisional; Region: PRK05298 314260000850 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 314260000851 ATP binding site [chemical binding]; other site 314260000852 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 314260000853 nucleotide binding region [chemical binding]; other site 314260000854 ATP-binding site [chemical binding]; other site 314260000855 Ultra-violet resistance protein B; Region: UvrB; pfam12344 314260000856 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 314260000857 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260000858 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 314260000859 DNA binding residues [nucleotide binding] 314260000860 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 314260000861 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 314260000862 Active Sites [active] 314260000863 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 314260000864 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 314260000865 CysD dimerization site [polypeptide binding]; other site 314260000866 G1 box; other site 314260000867 putative GEF interaction site [polypeptide binding]; other site 314260000868 GTP/Mg2+ binding site [chemical binding]; other site 314260000869 Switch I region; other site 314260000870 G2 box; other site 314260000871 G3 box; other site 314260000872 Switch II region; other site 314260000873 G4 box; other site 314260000874 G5 box; other site 314260000875 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 314260000876 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 314260000877 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 314260000878 ligand-binding site [chemical binding]; other site 314260000879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260000880 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 314260000881 dimer interface [polypeptide binding]; other site 314260000882 phosphorylation site [posttranslational modification] 314260000883 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 314260000884 ATP binding site [chemical binding]; other site 314260000885 Mg2+ binding site [ion binding]; other site 314260000886 G-X-G motif; other site 314260000887 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260000888 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 314260000889 active site 314260000890 phosphorylation site [posttranslational modification] 314260000891 intermolecular recognition site; other site 314260000892 dimerization interface [polypeptide binding]; other site 314260000893 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 314260000894 DNA binding site [nucleotide binding] 314260000895 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 314260000896 homodimer interface [polypeptide binding]; other site 314260000897 oligonucleotide binding site [chemical binding]; other site 314260000898 Maf-like protein; Region: Maf; pfam02545 314260000899 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314260000900 active site 314260000901 dimer interface [polypeptide binding]; other site 314260000902 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 314260000903 rRNA binding site [nucleotide binding]; other site 314260000904 predicted 30S ribosome binding site; other site 314260000905 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 314260000906 Low molecular weight phosphatase family; Region: LMWPc; cl00105 314260000907 active site 314260000908 Uncharacterized protein family (UPF0262); Region: UPF0262; pfam06793 314260000909 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 314260000910 histidinol dehydrogenase; Region: hisD; TIGR00069 314260000911 NAD binding site [chemical binding]; other site 314260000912 dimerization interface [polypeptide binding]; other site 314260000913 product binding site; other site 314260000914 substrate binding site [chemical binding]; other site 314260000915 zinc binding site [ion binding]; other site 314260000916 catalytic residues [active] 314260000917 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 314260000918 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 314260000919 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 314260000920 hinge; other site 314260000921 active site 314260000922 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 314260000923 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 314260000924 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 314260000925 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 314260000926 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 314260000927 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 314260000928 active site 314260000929 Zn binding site [ion binding]; other site 314260000930 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 314260000931 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 314260000932 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 314260000933 dimer interface [polypeptide binding]; other site 314260000934 active site 314260000935 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 314260000936 PBP superfamily domain; Region: PBP_like_2; cl17296 314260000937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260000938 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 314260000939 dimer interface [polypeptide binding]; other site 314260000940 phosphorylation site [posttranslational modification] 314260000941 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 314260000942 ATP binding site [chemical binding]; other site 314260000943 Mg2+ binding site [ion binding]; other site 314260000944 G-X-G motif; other site 314260000945 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260000946 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 314260000947 active site 314260000948 phosphorylation site [posttranslational modification] 314260000949 intermolecular recognition site; other site 314260000950 dimerization interface [polypeptide binding]; other site 314260000951 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 314260000952 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 314260000953 NAD(P) binding site [chemical binding]; other site 314260000954 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 314260000955 Protein of unknown function, DUF547; Region: DUF547; pfam04784 314260000956 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 314260000957 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 314260000958 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 314260000959 Probable Catalytic site; other site 314260000960 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 314260000961 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 314260000962 FeS/SAM binding site; other site 314260000963 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 314260000964 RNA/DNA hybrid binding site [nucleotide binding]; other site 314260000965 active site 314260000966 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 314260000967 DNA methylase; Region: N6_N4_Mtase; pfam01555 314260000968 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 314260000969 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314260000970 minor groove reading motif; other site 314260000971 helix-hairpin-helix signature motif; other site 314260000972 substrate binding pocket [chemical binding]; other site 314260000973 active site 314260000974 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 314260000975 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 314260000976 DNA binding and oxoG recognition site [nucleotide binding] 314260000977 Protein of unknown function (DUF721); Region: DUF721; pfam05258 314260000978 Thioredoxin; Region: Thioredoxin_4; pfam13462 314260000979 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 314260000980 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314260000981 AAA domain; Region: AAA_23; pfam13476 314260000982 Walker A/P-loop; other site 314260000983 ATP binding site [chemical binding]; other site 314260000984 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 314260000985 ABC transporter signature motif; other site 314260000986 Walker B; other site 314260000987 D-loop; other site 314260000988 H-loop/switch region; other site 314260000989 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 314260000990 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 314260000991 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 314260000992 ATP synthase subunit C; Region: ATP-synt_C; cl00466 314260000993 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 314260000994 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 314260000995 BCCT family transporter; Region: BCCT; pfam02028 314260000996 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 314260000997 Protein of unknown function (DUF983); Region: DUF983; cl02211 314260000998 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 314260000999 Subunit III/VIIa interface [polypeptide binding]; other site 314260001000 Phospholipid binding site [chemical binding]; other site 314260001001 Subunit I/III interface [polypeptide binding]; other site 314260001002 Subunit III/VIb interface [polypeptide binding]; other site 314260001003 Subunit III/VIa interface; other site 314260001004 Subunit III/Vb interface [polypeptide binding]; other site 314260001005 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 314260001006 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314260001007 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 314260001008 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260001009 catalytic residue [active] 314260001010 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 314260001011 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260001012 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314260001013 putative C-terminal domain interface [polypeptide binding]; other site 314260001014 putative GSH binding site (G-site) [chemical binding]; other site 314260001015 putative dimer interface [polypeptide binding]; other site 314260001016 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314260001017 N-terminal domain interface [polypeptide binding]; other site 314260001018 dimer interface [polypeptide binding]; other site 314260001019 substrate binding pocket (H-site) [chemical binding]; other site 314260001020 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 314260001021 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 314260001022 ATP binding site [chemical binding]; other site 314260001023 putative Mg++ binding site [ion binding]; other site 314260001024 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 314260001025 nucleotide binding region [chemical binding]; other site 314260001026 ATP-binding site [chemical binding]; other site 314260001027 DEAD/H associated; Region: DEAD_assoc; pfam08494 314260001028 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260001029 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 314260001030 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 314260001031 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260001032 active site 314260001033 HIGH motif; other site 314260001034 nucleotide binding site [chemical binding]; other site 314260001035 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 314260001036 KMSK motif region; other site 314260001037 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 314260001038 tRNA binding surface [nucleotide binding]; other site 314260001039 anticodon binding site; other site 314260001040 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 314260001041 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 314260001042 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 314260001043 Phosphotransferase enzyme family; Region: APH; pfam01636 314260001044 putative active site [active] 314260001045 putative substrate binding site [chemical binding]; other site 314260001046 ATP binding site [chemical binding]; other site 314260001047 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 314260001048 RNA/DNA hybrid binding site [nucleotide binding]; other site 314260001049 active site 314260001050 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 314260001051 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260001052 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 314260001053 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 314260001054 FeS/SAM binding site; other site 314260001055 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 314260001056 Ligand Binding Site [chemical binding]; other site 314260001057 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 314260001058 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 314260001059 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 314260001060 trimer interface [polypeptide binding]; other site 314260001061 putative metal binding site [ion binding]; other site 314260001062 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001063 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 314260001064 binding surface 314260001065 TPR motif; other site 314260001066 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001067 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001068 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 314260001069 binding surface 314260001070 TPR motif; other site 314260001071 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001072 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 314260001073 binding surface 314260001074 TPR motif; other site 314260001075 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001076 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001077 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 314260001078 binding surface 314260001079 TPR motif; other site 314260001080 Tetratricopeptide repeat; Region: TPR_12; pfam13424 314260001081 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 314260001082 PAS fold; Region: PAS_4; pfam08448 314260001083 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260001084 PAS domain; Region: PAS_9; pfam13426 314260001085 putative active site [active] 314260001086 heme pocket [chemical binding]; other site 314260001087 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314260001088 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314260001089 dimer interface [polypeptide binding]; other site 314260001090 putative CheW interface [polypeptide binding]; other site 314260001091 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 314260001092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 314260001093 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 314260001094 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260001095 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314260001096 dimerization interface [polypeptide binding]; other site 314260001097 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 314260001098 dimer interface [polypeptide binding]; other site 314260001099 phosphorylation site [posttranslational modification] 314260001100 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 314260001101 ATP binding site [chemical binding]; other site 314260001102 Mg2+ binding site [ion binding]; other site 314260001103 G-X-G motif; other site 314260001104 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260001105 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 314260001106 active site 314260001107 phosphorylation site [posttranslational modification] 314260001108 intermolecular recognition site; other site 314260001109 dimerization interface [polypeptide binding]; other site 314260001110 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 314260001111 active site 314260001112 phosphorylation site [posttranslational modification] 314260001113 intermolecular recognition site; other site 314260001114 dimerization interface [polypeptide binding]; other site 314260001115 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 314260001116 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 314260001117 substrate binding pocket [chemical binding]; other site 314260001118 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 314260001119 B12 binding site [chemical binding]; other site 314260001120 cobalt ligand [ion binding]; other site 314260001121 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 314260001122 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 314260001123 FAD binding site [chemical binding]; other site 314260001124 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 314260001125 putative DNA binding site [nucleotide binding]; other site 314260001126 putative Zn2+ binding site [ion binding]; other site 314260001127 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 314260001128 S-adenosylmethionine binding site [chemical binding]; other site 314260001129 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 314260001130 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 314260001131 catalytic residues [active] 314260001132 central insert; other site 314260001133 SurA N-terminal domain; Region: SurA_N; pfam09312 314260001134 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314260001135 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 314260001136 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 314260001137 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 314260001138 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 314260001139 S-adenosylmethionine binding site [chemical binding]; other site 314260001140 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 314260001141 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 314260001142 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 314260001143 GatB domain; Region: GatB_Yqey; smart00845 314260001144 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 314260001145 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 314260001146 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 314260001147 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 314260001148 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 314260001149 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 314260001150 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314260001151 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314260001152 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 314260001153 glutamine synthetase; Provisional; Region: glnA; PRK09469 314260001154 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 314260001155 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 314260001156 response regulator PleD; Reviewed; Region: pleD; PRK09581 314260001157 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 314260001158 active site 314260001159 phosphorylation site [posttranslational modification] 314260001160 intermolecular recognition site; other site 314260001161 dimerization interface [polypeptide binding]; other site 314260001162 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 314260001163 active site 314260001164 phosphorylation site [posttranslational modification] 314260001165 intermolecular recognition site; other site 314260001166 dimerization interface [polypeptide binding]; other site 314260001167 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314260001168 metal binding site [ion binding]; metal-binding site 314260001169 active site 314260001170 I-site; other site 314260001171 Response regulator receiver domain; Region: Response_reg; pfam00072 314260001172 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 314260001173 active site 314260001174 phosphorylation site [posttranslational modification] 314260001175 intermolecular recognition site; other site 314260001176 dimerization interface [polypeptide binding]; other site 314260001177 DNA polymerase IV; Provisional; Region: PRK02794 314260001178 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 314260001179 active site 314260001180 DNA binding site [nucleotide binding] 314260001181 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 314260001182 homotrimer interaction site [polypeptide binding]; other site 314260001183 putative active site [active] 314260001184 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 314260001185 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 314260001186 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 314260001187 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 314260001188 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 314260001189 active site 314260001190 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 314260001191 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 314260001192 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 314260001193 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314260001194 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314260001195 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314260001196 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314260001197 Surface antigen; Region: Bac_surface_Ag; pfam01103 314260001198 RIP metalloprotease RseP; Region: TIGR00054 314260001199 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 314260001200 active site 314260001201 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 314260001202 protein binding site [polypeptide binding]; other site 314260001203 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 314260001204 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 314260001205 putative substrate binding region [chemical binding]; other site 314260001206 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 314260001207 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 314260001208 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 314260001209 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 314260001210 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 314260001211 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 314260001212 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 314260001213 RNA polymerase sigma factor; Provisional; Region: PRK12539 314260001214 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260001215 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 314260001216 DNA binding residues [nucleotide binding] 314260001217 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 314260001218 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 314260001219 catalytic residue [active] 314260001220 putative FPP diphosphate binding site; other site 314260001221 putative FPP binding hydrophobic cleft; other site 314260001222 dimer interface [polypeptide binding]; other site 314260001223 putative IPP diphosphate binding site; other site 314260001224 ribosome recycling factor; Reviewed; Region: frr; PRK00083 314260001225 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 314260001226 hinge region; other site 314260001227 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 314260001228 putative nucleotide binding site [chemical binding]; other site 314260001229 uridine monophosphate binding site [chemical binding]; other site 314260001230 homohexameric interface [polypeptide binding]; other site 314260001231 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 314260001232 dimer interface [polypeptide binding]; other site 314260001233 phosphorylation site [posttranslational modification] 314260001234 elongation factor Ts; Provisional; Region: tsf; PRK09377 314260001235 UBA/TS-N domain; Region: UBA; pfam00627 314260001236 Elongation factor TS; Region: EF_TS; pfam00889 314260001237 Elongation factor TS; Region: EF_TS; pfam00889 314260001238 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 314260001239 rRNA interaction site [nucleotide binding]; other site 314260001240 S8 interaction site; other site 314260001241 putative laminin-1 binding site; other site 314260001242 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 314260001243 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 314260001244 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 314260001245 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 314260001246 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 314260001247 classical (c) SDRs; Region: SDR_c; cd05233 314260001248 NAD(P) binding site [chemical binding]; other site 314260001249 active site 314260001250 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 314260001251 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 314260001252 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 314260001253 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 314260001254 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 314260001255 putative substrate translocation pore; other site 314260001256 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 314260001257 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 314260001258 dimer interface [polypeptide binding]; other site 314260001259 active site 314260001260 CoA binding pocket [chemical binding]; other site 314260001261 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314260001262 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260001263 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 314260001264 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 314260001265 quinolinate synthetase; Provisional; Region: PRK09375 314260001266 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 314260001267 L-aspartate oxidase; Provisional; Region: PRK06175 314260001268 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314260001269 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 314260001270 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 314260001271 dimerization interface [polypeptide binding]; other site 314260001272 active site 314260001273 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 314260001274 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 314260001275 pyruvate phosphate dikinase; Provisional; Region: PRK09279 314260001276 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 314260001277 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314260001278 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314260001279 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 314260001280 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260001281 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 314260001282 putative metal binding site; other site 314260001283 Putative phosphatase (DUF442); Region: DUF442; cl17385 314260001284 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 314260001285 hypothetical protein; Provisional; Region: PRK05325 314260001286 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 314260001287 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 314260001288 tetramerization interface [polypeptide binding]; other site 314260001289 substrate binding pocket [chemical binding]; other site 314260001290 catalytic residues [active] 314260001291 inhibitor binding sites; inhibition site 314260001292 NADP(H) binding site [chemical binding]; other site 314260001293 SpoVR family protein; Provisional; Region: PRK11767 314260001294 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 314260001295 MAPEG family; Region: MAPEG; pfam01124 314260001296 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 314260001297 Transglycosylase; Region: Transgly; cl17702 314260001298 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 314260001299 dimer interface [polypeptide binding]; other site 314260001300 motif 1; other site 314260001301 active site 314260001302 motif 2; other site 314260001303 motif 3; other site 314260001304 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 314260001305 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 314260001306 active site 314260001307 motif I; other site 314260001308 motif II; other site 314260001309 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 314260001310 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 314260001311 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 314260001312 active site 314260001313 Riboflavin kinase; Region: Flavokinase; pfam01687 314260001314 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 314260001315 active site 314260001316 putative DNA-binding cleft [nucleotide binding]; other site 314260001317 dimer interface [polypeptide binding]; other site 314260001318 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 314260001319 RuvA N terminal domain; Region: RuvA_N; pfam01330 314260001320 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 314260001321 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 314260001322 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 314260001323 Walker A motif; other site 314260001324 ATP binding site [chemical binding]; other site 314260001325 Walker B motif; other site 314260001326 arginine finger; other site 314260001327 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 314260001328 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 314260001329 active site 314260001330 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 314260001331 GTP cyclohydrolase I; Provisional; Region: PLN03044 314260001332 active site 314260001333 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 314260001334 homopentamer interface [polypeptide binding]; other site 314260001335 active site 314260001336 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 314260001337 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 314260001338 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 314260001339 Lumazine binding domain; Region: Lum_binding; pfam00677 314260001340 Lumazine binding domain; Region: Lum_binding; pfam00677 314260001341 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 314260001342 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 314260001343 catalytic motif [active] 314260001344 Zn binding site [ion binding]; other site 314260001345 RibD C-terminal domain; Region: RibD_C; cl17279 314260001346 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 314260001347 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 314260001348 lipoprotein signal peptidase; Provisional; Region: PRK14787 314260001349 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 314260001350 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260001351 active site 314260001352 HIGH motif; other site 314260001353 nucleotide binding site [chemical binding]; other site 314260001354 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 314260001355 active site 314260001356 KMSKS motif; other site 314260001357 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 314260001358 tRNA binding surface [nucleotide binding]; other site 314260001359 anticodon binding site; other site 314260001360 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 314260001361 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314260001362 Sel1-like repeats; Region: SEL1; smart00671 314260001363 Sel1-like repeats; Region: SEL1; smart00671 314260001364 Sel1 repeat; Region: Sel1; cl02723 314260001365 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 314260001366 thiamine phosphate binding site [chemical binding]; other site 314260001367 active site 314260001368 pyrophosphate binding site [ion binding]; other site 314260001369 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 314260001370 catalytic residue [active] 314260001371 Phosphoglycerate kinase; Region: PGK; pfam00162 314260001372 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 314260001373 substrate binding site [chemical binding]; other site 314260001374 hinge regions; other site 314260001375 ADP binding site [chemical binding]; other site 314260001376 catalytic site [active] 314260001377 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 314260001378 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 314260001379 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 314260001380 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 314260001381 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 314260001382 TPP-binding site [chemical binding]; other site 314260001383 dimer interface [polypeptide binding]; other site 314260001384 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 314260001385 PYR/PP interface [polypeptide binding]; other site 314260001386 dimer interface [polypeptide binding]; other site 314260001387 TPP binding site [chemical binding]; other site 314260001388 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314260001389 Cell division protein ZapA; Region: ZapA; pfam05164 314260001390 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 314260001391 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 314260001392 DNA repair protein RadA; Provisional; Region: PRK11823 314260001393 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 314260001394 Walker A motif; other site 314260001395 ATP binding site [chemical binding]; other site 314260001396 Walker B motif; other site 314260001397 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314260001398 Colicin V production protein; Region: Colicin_V; pfam02674 314260001399 amidophosphoribosyltransferase; Provisional; Region: PRK09123 314260001400 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 314260001401 active site 314260001402 tetramer interface [polypeptide binding]; other site 314260001403 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260001404 active site 314260001405 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 314260001406 putative active site [active] 314260001407 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314260001408 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 314260001409 putative acyl-acceptor binding pocket; other site 314260001410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 314260001411 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 314260001412 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 314260001413 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 314260001414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260001415 homodimer interface [polypeptide binding]; other site 314260001416 catalytic residue [active] 314260001417 Methyltransferase domain; Region: Methyltransf_11; pfam08241 314260001418 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 314260001419 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 314260001420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260001421 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 314260001422 putative active site [active] 314260001423 putative metal binding site [ion binding]; other site 314260001424 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 314260001425 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 314260001426 trimer interface [polypeptide binding]; other site 314260001427 active site 314260001428 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 314260001429 trimer interface [polypeptide binding]; other site 314260001430 active site 314260001431 Tellurite resistance protein TerB; Region: TerB; cl17311 314260001432 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 314260001433 binding surface 314260001434 TPR repeat; Region: TPR_11; pfam13414 314260001435 TPR motif; other site 314260001436 TPR repeat; Region: TPR_11; pfam13414 314260001437 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 314260001438 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314260001439 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314260001440 active site 314260001441 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314260001442 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 314260001443 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 314260001444 generic binding surface II; other site 314260001445 generic binding surface I; other site 314260001446 PII uridylyl-transferase; Provisional; Region: PRK05092 314260001447 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314260001448 metal binding triad; other site 314260001449 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 314260001450 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 314260001451 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 314260001452 MutS domain I; Region: MutS_I; pfam01624 314260001453 MutS domain II; Region: MutS_II; pfam05188 314260001454 MutS domain III; Region: MutS_III; pfam05192 314260001455 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 314260001456 Walker A/P-loop; other site 314260001457 ATP binding site [chemical binding]; other site 314260001458 Q-loop/lid; other site 314260001459 ABC transporter signature motif; other site 314260001460 Walker B; other site 314260001461 D-loop; other site 314260001462 H-loop/switch region; other site 314260001463 Protein of unknown function DUF45; Region: DUF45; pfam01863 314260001464 Transglycosylase; Region: Transgly; pfam00912 314260001465 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 314260001466 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314260001467 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 314260001468 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314260001469 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314260001470 ligand binding site [chemical binding]; other site 314260001471 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 314260001472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260001473 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 314260001474 DNA binding residues [nucleotide binding] 314260001475 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 314260001476 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 314260001477 substrate binding site [chemical binding]; other site 314260001478 hexamer interface [polypeptide binding]; other site 314260001479 metal binding site [ion binding]; metal-binding site 314260001480 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 314260001481 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 314260001482 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 314260001483 purine monophosphate binding site [chemical binding]; other site 314260001484 dimer interface [polypeptide binding]; other site 314260001485 putative catalytic residues [active] 314260001486 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 314260001487 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 314260001488 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 314260001489 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 314260001490 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 314260001491 NAD(P) binding site [chemical binding]; other site 314260001492 murein L,D-transpeptidase; Provisional; Region: PRK10594 314260001493 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314260001494 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314260001495 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 314260001496 Peptidase M15; Region: Peptidase_M15_3; cl01194 314260001497 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 314260001498 putative ligand binding site [chemical binding]; other site 314260001499 Predicted methyltransferases [General function prediction only]; Region: COG0313 314260001500 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 314260001501 putative SAM binding site [chemical binding]; other site 314260001502 putative homodimer interface [polypeptide binding]; other site 314260001503 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 314260001504 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 314260001505 BON domain; Region: BON; pfam04972 314260001506 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 314260001507 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 314260001508 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 314260001509 Walker A motif; other site 314260001510 ATP binding site [chemical binding]; other site 314260001511 Walker B motif; other site 314260001512 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 314260001513 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260001514 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 314260001515 dimer interface [polypeptide binding]; other site 314260001516 phosphorylation site [posttranslational modification] 314260001517 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 314260001518 ATP binding site [chemical binding]; other site 314260001519 Mg2+ binding site [ion binding]; other site 314260001520 G-X-G motif; other site 314260001521 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260001522 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 314260001523 active site 314260001524 phosphorylation site [posttranslational modification] 314260001525 intermolecular recognition site; other site 314260001526 dimerization interface [polypeptide binding]; other site 314260001527 Response regulator receiver domain; Region: Response_reg; pfam00072 314260001528 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 314260001529 active site 314260001530 phosphorylation site [posttranslational modification] 314260001531 intermolecular recognition site; other site 314260001532 dimerization interface [polypeptide binding]; other site 314260001533 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 314260001534 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 314260001535 FeS/SAM binding site; other site 314260001536 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 314260001537 active site 314260001538 dimerization interface [polypeptide binding]; other site 314260001539 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 314260001540 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 314260001541 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 314260001542 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 314260001543 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314260001544 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 314260001545 UGMP family protein; Validated; Region: PRK09604 314260001546 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314260001547 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 314260001548 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; cl17708 314260001549 domain interfaces; other site 314260001550 active site 314260001551 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 314260001552 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 314260001553 active site 314260001554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 314260001555 HemY protein N-terminus; Region: HemY_N; pfam07219 314260001556 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 314260001557 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 314260001558 catalytic residues [active] 314260001559 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 314260001560 Part of AAA domain; Region: AAA_19; pfam13245 314260001561 Family description; Region: UvrD_C_2; pfam13538 314260001562 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 314260001563 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 314260001564 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 314260001565 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 314260001566 Substrate binding site; other site 314260001567 metal-binding site 314260001568 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 314260001569 Phosphotransferase enzyme family; Region: APH; pfam01636 314260001570 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 314260001571 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 314260001572 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 314260001573 catalytic loop [active] 314260001574 iron binding site [ion binding]; other site 314260001575 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 314260001576 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 314260001577 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 314260001578 motif II; other site 314260001579 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 314260001580 Ligand Binding Site [chemical binding]; other site 314260001581 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260001582 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260001583 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260001584 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 314260001585 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 314260001586 dimer interface [polypeptide binding]; other site 314260001587 substrate binding site [chemical binding]; other site 314260001588 metal binding sites [ion binding]; metal-binding site 314260001589 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 314260001590 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 314260001591 active site 314260001592 catalytic site [active] 314260001593 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 314260001594 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 314260001595 active site 314260001596 nucleophile elbow; other site 314260001597 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 314260001598 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 314260001599 tetramer interface [polypeptide binding]; other site 314260001600 active site 314260001601 Mg2+/Mn2+ binding site [ion binding]; other site 314260001602 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 314260001603 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314260001604 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260001605 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260001606 Outer membrane efflux protein; Region: OEP; pfam02321 314260001607 Outer membrane efflux protein; Region: OEP; pfam02321 314260001608 Ca2+ binding site [ion binding]; other site 314260001609 EF hand; Region: EF_hand_3; pfam13202 314260001610 Ca2+ binding site [ion binding]; other site 314260001611 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 314260001612 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314260001613 NAD binding site [chemical binding]; other site 314260001614 substrate binding site [chemical binding]; other site 314260001615 putative active site [active] 314260001616 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314260001617 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 314260001618 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 314260001619 Walker A/P-loop; other site 314260001620 ATP binding site [chemical binding]; other site 314260001621 Q-loop/lid; other site 314260001622 ABC transporter signature motif; other site 314260001623 Walker B; other site 314260001624 D-loop; other site 314260001625 H-loop/switch region; other site 314260001626 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 314260001627 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 314260001628 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 314260001629 UbiA prenyltransferase family; Region: UbiA; pfam01040 314260001630 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 314260001631 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 314260001632 Subunit I/III interface [polypeptide binding]; other site 314260001633 D-pathway; other site 314260001634 Subunit I/VIIc interface [polypeptide binding]; other site 314260001635 Subunit I/IV interface [polypeptide binding]; other site 314260001636 Subunit I/II interface [polypeptide binding]; other site 314260001637 Low-spin heme (heme a) binding site [chemical binding]; other site 314260001638 Subunit I/VIIa interface [polypeptide binding]; other site 314260001639 Dimer interface; other site 314260001640 Subunit I/VIa interface [polypeptide binding]; other site 314260001641 Putative water exit pathway; other site 314260001642 Binuclear center (heme a3/CuB) [ion binding]; other site 314260001643 K-pathway; other site 314260001644 Subunit I/Vb interface [polypeptide binding]; other site 314260001645 Putative proton exit pathway; other site 314260001646 Subunit I/VIb interface; other site 314260001647 Subunit I/VIc interface [polypeptide binding]; other site 314260001648 Electron transfer pathway; other site 314260001649 Subunit I/VIIIb interface [polypeptide binding]; other site 314260001650 Subunit I/VIIb interface [polypeptide binding]; other site 314260001651 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 314260001652 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 314260001653 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 314260001654 protease TldD; Provisional; Region: tldD; PRK10735 314260001655 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 314260001656 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 314260001657 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 314260001658 active site 314260001659 HIGH motif; other site 314260001660 nucleotide binding site [chemical binding]; other site 314260001661 active site 314260001662 KMSKS motif; other site 314260001663 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 314260001664 DnaA box-binding interface [nucleotide binding]; other site 314260001665 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 314260001666 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260001667 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 314260001668 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260001669 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 314260001670 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260001671 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 314260001672 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 314260001673 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 314260001674 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 314260001675 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 314260001676 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 314260001677 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 314260001678 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 314260001679 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 314260001680 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 314260001681 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 314260001682 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 314260001683 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 314260001684 NAD binding site [chemical binding]; other site 314260001685 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314260001686 AIR carboxylase; Region: AIRC; pfam00731 314260001687 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 314260001688 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 314260001689 active site 314260001690 dimer interface [polypeptide binding]; other site 314260001691 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 314260001692 dimer interface [polypeptide binding]; other site 314260001693 active site 314260001694 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 314260001695 putative catalytic residue [active] 314260001696 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 314260001697 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 314260001698 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 314260001699 DsbD alpha interface [polypeptide binding]; other site 314260001700 catalytic residues [active] 314260001701 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 314260001702 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 314260001703 active site 314260001704 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 314260001705 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 314260001706 active site 314260001707 Zn binding site [ion binding]; other site 314260001708 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 314260001709 active site 314260001710 hypothetical protein; Reviewed; Region: PRK00024 314260001711 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 314260001712 MPN+ (JAMM) motif; other site 314260001713 Zinc-binding site [ion binding]; other site 314260001714 hypothetical protein; Provisional; Region: PRK07550 314260001715 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 314260001716 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 314260001717 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314260001718 ligand binding site [chemical binding]; other site 314260001719 translocation protein TolB; Provisional; Region: tolB; PRK05137 314260001720 TolB amino-terminal domain; Region: TolB_N; pfam04052 314260001721 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314260001722 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314260001723 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 314260001724 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314260001725 TolR protein; Region: tolR; TIGR02801 314260001726 TolQ protein; Region: tolQ; TIGR02796 314260001727 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314260001728 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 314260001729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260001730 active site 314260001731 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 314260001732 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 314260001733 Predicted permeases [General function prediction only]; Region: RarD; COG2962 314260001734 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314260001735 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 314260001736 RNA binding surface [nucleotide binding]; other site 314260001737 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314260001738 active site 314260001739 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 314260001740 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314260001741 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260001742 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 314260001743 DNA binding residues [nucleotide binding] 314260001744 Putative phosphatase (DUF442); Region: DUF442; cl17385 314260001745 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314260001746 high affinity sulphate transporter 1; Region: sulP; TIGR00815 314260001747 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314260001748 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 314260001749 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314260001750 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 314260001751 dimerization interface [polypeptide binding]; other site 314260001752 putative DNA binding site [nucleotide binding]; other site 314260001753 putative Zn2+ binding site [ion binding]; other site 314260001754 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 314260001755 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314260001756 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260001757 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 314260001758 MAPEG family; Region: MAPEG; cl09190 314260001759 SnoaL-like domain; Region: SnoaL_2; pfam12680 314260001760 Predicted transcriptional regulators [Transcription]; Region: COG1733 314260001761 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 314260001762 Telomere-binding protein beta subunit (TEBP beta); Region: TEBP_beta; pfam07404 314260001763 YCII-related domain; Region: YCII; cl00999 314260001764 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 314260001765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260001766 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 314260001767 DNA binding residues [nucleotide binding] 314260001768 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 314260001769 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314260001770 ATP binding site [chemical binding]; other site 314260001771 putative Mg++ binding site [ion binding]; other site 314260001772 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 314260001773 nucleotide binding region [chemical binding]; other site 314260001774 ATP-binding site [chemical binding]; other site 314260001775 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 314260001776 RNA binding site [nucleotide binding]; other site 314260001777 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 314260001778 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 314260001779 DNA polymerase IV; Reviewed; Region: PRK03103 314260001780 Y-family of DNA polymerases; Region: PolY; cd00424 314260001781 active site 314260001782 DNA binding site [nucleotide binding] 314260001783 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 314260001784 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 314260001785 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 314260001786 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 314260001787 5' RNA guide strand anchoring site; other site 314260001788 active site 314260001789 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 314260001790 SIR2-like domain; Region: SIR2_2; pfam13289 314260001791 Abi-like protein; Region: Abi_2; pfam07751 314260001792 Helix-turn-helix domain; Region: HTH_36; pfam13730 314260001793 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260001794 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 314260001795 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 314260001796 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 314260001797 VirB7 interaction site; other site 314260001798 conjugal transfer protein TrbF; Provisional; Region: PRK13872 314260001799 conjugal transfer protein TrbL; Provisional; Region: PRK13875 314260001800 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 314260001801 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 314260001802 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 314260001803 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 314260001804 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 314260001805 Walker A motif; other site 314260001806 ATP binding site [chemical binding]; other site 314260001807 Walker B motif; other site 314260001808 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 314260001809 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 314260001810 TrbC/VIRB2 family; Region: TrbC; pfam04956 314260001811 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 314260001812 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 314260001813 ATP binding site [chemical binding]; other site 314260001814 Walker A motif; other site 314260001815 hexamer interface [polypeptide binding]; other site 314260001816 Walker B motif; other site 314260001817 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 314260001818 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 314260001819 Walker A motif; other site 314260001820 ATP binding site [chemical binding]; other site 314260001821 Walker B motif; other site 314260001822 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 314260001823 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 314260001824 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 314260001825 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 314260001826 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 314260001827 Helix-turn-helix domain; Region: HTH_17; pfam12728 314260001828 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 314260001829 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260001830 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260001831 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 314260001832 non-specific DNA binding site [nucleotide binding]; other site 314260001833 salt bridge; other site 314260001834 sequence-specific DNA binding site [nucleotide binding]; other site 314260001835 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 314260001836 ParB-like nuclease domain; Region: ParB; smart00470 314260001837 Antirestriction protein (ArdA); Region: ArdA; pfam07275 314260001838 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 314260001839 Rrf2 family protein; Region: rrf2_super; TIGR00738 314260001840 Transcriptional regulator; Region: Rrf2; pfam02082 314260001841 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314260001842 TrkA-C domain; Region: TrkA_C; pfam02080 314260001843 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314260001844 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 314260001845 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 314260001846 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260001847 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260001848 N-terminal plug; other site 314260001849 ligand-binding site [chemical binding]; other site 314260001850 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 314260001851 TrkA-C domain; Region: TrkA_C; pfam02080 314260001852 TrkA-C domain; Region: TrkA_C; pfam02080 314260001853 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 314260001854 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 314260001855 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 314260001856 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 314260001857 active site 314260001858 Int/Topo IB signature motif; other site 314260001859 DNA binding site [nucleotide binding] 314260001860 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 314260001861 putative deacylase active site [active] 314260001862 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 314260001863 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 314260001864 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 314260001865 Uncharacterized conserved protein [Function unknown]; Region: COG2835 314260001866 Bacterial SH3 domain; Region: SH3_4; pfam06347 314260001867 Bacterial SH3 domain; Region: SH3_4; pfam06347 314260001868 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 314260001869 active site 1 [active] 314260001870 dimer interface [polypeptide binding]; other site 314260001871 active site 2 [active] 314260001872 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 314260001873 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 314260001874 dimer interface [polypeptide binding]; other site 314260001875 active site 314260001876 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 314260001877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260001878 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 314260001879 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 314260001880 NAD binding site [chemical binding]; other site 314260001881 homotetramer interface [polypeptide binding]; other site 314260001882 homodimer interface [polypeptide binding]; other site 314260001883 substrate binding site [chemical binding]; other site 314260001884 active site 314260001885 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 314260001886 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 314260001887 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 314260001888 active site 314260001889 dimer interface [polypeptide binding]; other site 314260001890 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 314260001891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260001892 NAD(P) binding site [chemical binding]; other site 314260001893 active site 314260001894 EVE domain; Region: EVE; pfam01878 314260001895 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 314260001896 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 314260001897 putative catalytic cysteine [active] 314260001898 gamma-glutamyl kinase; Provisional; Region: PRK05429 314260001899 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 314260001900 nucleotide binding site [chemical binding]; other site 314260001901 homotetrameric interface [polypeptide binding]; other site 314260001902 putative phosphate binding site [ion binding]; other site 314260001903 putative allosteric binding site; other site 314260001904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260001905 NAD(P) binding site [chemical binding]; other site 314260001906 active site 314260001907 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 314260001908 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260001909 PAS domain; Region: PAS_9; pfam13426 314260001910 putative active site [active] 314260001911 heme pocket [chemical binding]; other site 314260001912 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 314260001913 Histidine kinase; Region: HisKA_2; pfam07568 314260001914 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 314260001915 ATP binding site [chemical binding]; other site 314260001916 Mg2+ binding site [ion binding]; other site 314260001917 G-X-G motif; other site 314260001918 recombination protein RecR; Reviewed; Region: recR; PRK00076 314260001919 RecR protein; Region: RecR; pfam02132 314260001920 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 314260001921 putative active site [active] 314260001922 putative metal-binding site [ion binding]; other site 314260001923 tetramer interface [polypeptide binding]; other site 314260001924 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 314260001925 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 314260001926 substrate binding site [chemical binding]; other site 314260001927 catalytic Zn binding site [ion binding]; other site 314260001928 NAD binding site [chemical binding]; other site 314260001929 structural Zn binding site [ion binding]; other site 314260001930 dimer interface [polypeptide binding]; other site 314260001931 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 314260001932 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314260001933 S-formylglutathione hydrolase; Region: PLN02442 314260001934 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 314260001935 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 314260001936 putative active site [active] 314260001937 homotetrameric interface [polypeptide binding]; other site 314260001938 metal binding site [ion binding]; metal-binding site 314260001939 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 314260001940 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 314260001941 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 314260001942 Walker A motif; other site 314260001943 ATP binding site [chemical binding]; other site 314260001944 Walker B motif; other site 314260001945 arginine finger; other site 314260001946 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 314260001947 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 314260001948 DinB family; Region: DinB; cl17821 314260001949 DinB superfamily; Region: DinB_2; pfam12867 314260001950 hypothetical protein; Validated; Region: PRK00153 314260001951 primosome assembly protein PriA; Validated; Region: PRK05580 314260001952 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 314260001953 ATP binding site [chemical binding]; other site 314260001954 putative Mg++ binding site [ion binding]; other site 314260001955 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 314260001956 ATP-binding site [chemical binding]; other site 314260001957 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 314260001958 Low molecular weight phosphatase family; Region: LMWPc; cd00115 314260001959 active site 314260001960 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314260001961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260001962 NAD(P) binding site [chemical binding]; other site 314260001963 active site 314260001964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260001965 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 314260001966 dimer interface [polypeptide binding]; other site 314260001967 phosphorylation site [posttranslational modification] 314260001968 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 314260001969 ATP binding site [chemical binding]; other site 314260001970 Mg2+ binding site [ion binding]; other site 314260001971 G-X-G motif; other site 314260001972 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260001973 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 314260001974 active site 314260001975 phosphorylation site [posttranslational modification] 314260001976 intermolecular recognition site; other site 314260001977 dimerization interface [polypeptide binding]; other site 314260001978 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 314260001979 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 314260001980 homotetramer interface [polypeptide binding]; other site 314260001981 ligand binding site [chemical binding]; other site 314260001982 catalytic site [active] 314260001983 NAD binding site [chemical binding]; other site 314260001984 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260001985 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 314260001986 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314260001987 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 314260001988 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 314260001989 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 314260001990 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 314260001991 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 314260001992 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 314260001993 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 314260001994 putative NADH binding site [chemical binding]; other site 314260001995 putative active site [active] 314260001996 nudix motif; other site 314260001997 putative metal binding site [ion binding]; other site 314260001998 prephenate dehydratase; Provisional; Region: PRK11899 314260001999 Prephenate dehydratase; Region: PDT; pfam00800 314260002000 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 314260002001 putative L-Phe binding site [chemical binding]; other site 314260002002 Cytochrome c2 [Energy production and conversion]; Region: COG3474 314260002003 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 314260002004 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 314260002005 NlpC/P60 family; Region: NLPC_P60; cl17555 314260002006 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 314260002007 dimer interface [polypeptide binding]; other site 314260002008 catalytic triad [active] 314260002009 MarR family; Region: MarR; pfam01047 314260002010 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 314260002011 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 314260002012 trimer interface [polypeptide binding]; other site 314260002013 active site 314260002014 substrate binding site [chemical binding]; other site 314260002015 CoA binding site [chemical binding]; other site 314260002016 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 314260002017 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 314260002018 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314260002019 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 314260002020 NAD-dependent deacetylase; Provisional; Region: PRK00481 314260002021 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 314260002022 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 314260002023 aromatic arch; other site 314260002024 DCoH dimer interaction site [polypeptide binding]; other site 314260002025 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 314260002026 DCoH tetramer interaction site [polypeptide binding]; other site 314260002027 substrate binding site [chemical binding]; other site 314260002028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260002029 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 314260002030 active site 314260002031 phosphorylation site [posttranslational modification] 314260002032 intermolecular recognition site; other site 314260002033 dimerization interface [polypeptide binding]; other site 314260002034 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 314260002035 DNA binding site [nucleotide binding] 314260002036 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 314260002037 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 314260002038 dimer interface [polypeptide binding]; other site 314260002039 phosphorylation site [posttranslational modification] 314260002040 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 314260002041 ATP binding site [chemical binding]; other site 314260002042 Mg2+ binding site [ion binding]; other site 314260002043 G-X-G motif; other site 314260002044 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 314260002045 Hpr binding site; other site 314260002046 active site 314260002047 homohexamer subunit interaction site [polypeptide binding]; other site 314260002048 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 314260002049 active pocket/dimerization site; other site 314260002050 active site 314260002051 phosphorylation site [posttranslational modification] 314260002052 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 314260002053 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 314260002054 active site 314260002055 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 314260002056 TadE-like protein; Region: TadE; pfam07811 314260002057 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 314260002058 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 314260002059 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 314260002060 Zn binding site [ion binding]; other site 314260002061 GTP-binding protein LepA; Provisional; Region: PRK05433 314260002062 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 314260002063 G1 box; other site 314260002064 putative GEF interaction site [polypeptide binding]; other site 314260002065 GTP/Mg2+ binding site [chemical binding]; other site 314260002066 Switch I region; other site 314260002067 G2 box; other site 314260002068 G3 box; other site 314260002069 Switch II region; other site 314260002070 G4 box; other site 314260002071 G5 box; other site 314260002072 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 314260002073 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 314260002074 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 314260002075 aconitate hydratase; Validated; Region: PRK09277 314260002076 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 314260002077 substrate binding site [chemical binding]; other site 314260002078 ligand binding site [chemical binding]; other site 314260002079 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 314260002080 substrate binding site [chemical binding]; other site 314260002081 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 314260002082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260002083 Walker A/P-loop; other site 314260002084 ATP binding site [chemical binding]; other site 314260002085 Q-loop/lid; other site 314260002086 ABC transporter signature motif; other site 314260002087 Walker B; other site 314260002088 D-loop; other site 314260002089 H-loop/switch region; other site 314260002090 CcmB protein; Region: CcmB; cl17444 314260002091 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 314260002092 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 314260002093 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314260002094 DXD motif; other site 314260002095 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314260002096 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 314260002097 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 314260002098 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 314260002099 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 314260002100 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 314260002101 FeS/SAM binding site; other site 314260002102 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 314260002103 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 314260002104 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 314260002105 P loop; other site 314260002106 GTP binding site [chemical binding]; other site 314260002107 Intracellular septation protein A; Region: IspA; pfam04279 314260002108 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 314260002109 nudix motif; other site 314260002110 MarR family; Region: MarR_2; pfam12802 314260002111 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 314260002112 putative catalytic site [active] 314260002113 putative phosphate binding site [ion binding]; other site 314260002114 active site 314260002115 metal binding site A [ion binding]; metal-binding site 314260002116 DNA binding site [nucleotide binding] 314260002117 putative AP binding site [nucleotide binding]; other site 314260002118 putative metal binding site B [ion binding]; other site 314260002119 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314260002120 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 314260002121 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 314260002122 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 314260002123 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 314260002124 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 314260002125 Hydroxymethylglutaryl-coenzyme A synthase C terminal; Region: HMG_CoA_synt_C; pfam08540 314260002126 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 314260002127 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314260002128 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 314260002129 catalytic motif [active] 314260002130 Catalytic residue [active] 314260002131 dihydrodipicolinate reductase; Provisional; Region: PRK00048 314260002132 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 314260002133 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 314260002134 chaperone protein DnaJ; Provisional; Region: PRK10767 314260002135 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 314260002136 HSP70 interaction site [polypeptide binding]; other site 314260002137 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 314260002138 Zn binding sites [ion binding]; other site 314260002139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314260002140 dimer interface [polypeptide binding]; other site 314260002141 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 314260002142 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 314260002143 nucleotide binding site [chemical binding]; other site 314260002144 NEF interaction site [polypeptide binding]; other site 314260002145 SBD interface [polypeptide binding]; other site 314260002146 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 314260002147 Tetratricopeptide repeat; Region: TPR_16; pfam13432 314260002148 Protein of unknown function (DUF560); Region: DUF560; pfam04575 314260002149 heat shock protein GrpE; Provisional; Region: PRK14141 314260002150 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 314260002151 dimer interface [polypeptide binding]; other site 314260002152 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 314260002153 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 314260002154 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 314260002155 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 314260002156 ribonuclease PH; Reviewed; Region: rph; PRK00173 314260002157 Ribonuclease PH; Region: RNase_PH_bact; cd11362 314260002158 hexamer interface [polypeptide binding]; other site 314260002159 active site 314260002160 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 314260002161 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 314260002162 putative acyl-acceptor binding pocket; other site 314260002163 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 314260002164 Zn binding site [ion binding]; other site 314260002165 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 314260002166 active site 314260002167 dimer interface [polypeptide binding]; other site 314260002168 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 314260002169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314260002170 minor groove reading motif; other site 314260002171 helix-hairpin-helix signature motif; other site 314260002172 substrate binding pocket [chemical binding]; other site 314260002173 active site 314260002174 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 314260002175 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 314260002176 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 314260002177 catalytic core [active] 314260002178 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260002179 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 314260002180 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 314260002181 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 314260002182 FeS/SAM binding site; other site 314260002183 TRAM domain; Region: TRAM; pfam01938 314260002184 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 314260002185 PhoH-like protein; Region: PhoH; pfam02562 314260002186 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 314260002187 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 314260002188 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 314260002189 Transporter associated domain; Region: CorC_HlyC; smart01091 314260002190 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 314260002191 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 314260002192 putative active site [active] 314260002193 catalytic triad [active] 314260002194 putative dimer interface [polypeptide binding]; other site 314260002195 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260002196 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 314260002197 sequence-specific DNA binding site [nucleotide binding]; other site 314260002198 salt bridge; other site 314260002199 S-adenosylmethionine synthetase; Validated; Region: PRK05250 314260002200 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 314260002201 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 314260002202 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 314260002203 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 314260002204 S-adenosylmethionine binding site [chemical binding]; other site 314260002205 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314260002206 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 314260002207 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 314260002208 conserved cys residue [active] 314260002209 ribosome maturation protein RimP; Reviewed; Region: PRK00092 314260002210 Sm and related proteins; Region: Sm_like; cl00259 314260002211 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 314260002212 putative oligomer interface [polypeptide binding]; other site 314260002213 putative RNA binding site [nucleotide binding]; other site 314260002214 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 314260002215 NusA N-terminal domain; Region: NusA_N; pfam08529 314260002216 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 314260002217 RNA binding site [nucleotide binding]; other site 314260002218 homodimer interface [polypeptide binding]; other site 314260002219 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 314260002220 G-X-X-G motif; other site 314260002221 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 314260002222 G-X-X-G motif; other site 314260002223 hypothetical protein; Provisional; Region: PRK09190 314260002224 Protein of unknown function (DUF448); Region: DUF448; pfam04296 314260002225 putative RNA binding cleft [nucleotide binding]; other site 314260002226 translation initiation factor IF-2; Validated; Region: infB; PRK05306 314260002227 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 314260002228 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 314260002229 G1 box; other site 314260002230 putative GEF interaction site [polypeptide binding]; other site 314260002231 GTP/Mg2+ binding site [chemical binding]; other site 314260002232 Switch I region; other site 314260002233 G2 box; other site 314260002234 G3 box; other site 314260002235 Switch II region; other site 314260002236 G4 box; other site 314260002237 G5 box; other site 314260002238 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 314260002239 Translation-initiation factor 2; Region: IF-2; pfam11987 314260002240 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 314260002241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 314260002242 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 314260002243 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 314260002244 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 314260002245 active site 314260002246 phosphorylation site [posttranslational modification] 314260002247 intermolecular recognition site; other site 314260002248 dimerization interface [polypeptide binding]; other site 314260002249 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 314260002250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260002251 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 314260002252 ATP binding site [chemical binding]; other site 314260002253 Mg2+ binding site [ion binding]; other site 314260002254 G-X-G motif; other site 314260002255 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 314260002256 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 314260002257 Cu(I) binding site [ion binding]; other site 314260002258 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 314260002259 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 314260002260 DNA polymerase I; Provisional; Region: PRK05755 314260002261 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 314260002262 active site 314260002263 metal binding site 1 [ion binding]; metal-binding site 314260002264 putative 5' ssDNA interaction site; other site 314260002265 metal binding site 3; metal-binding site 314260002266 metal binding site 2 [ion binding]; metal-binding site 314260002267 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 314260002268 putative DNA binding site [nucleotide binding]; other site 314260002269 putative metal binding site [ion binding]; other site 314260002270 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 314260002271 active site 314260002272 catalytic site [active] 314260002273 substrate binding site [chemical binding]; other site 314260002274 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 314260002275 active site 314260002276 DNA binding site [nucleotide binding] 314260002277 catalytic site [active] 314260002278 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 314260002279 Peptidase family M48; Region: Peptidase_M48; cl12018 314260002280 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 314260002281 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 314260002282 Tetratricopeptide repeat; Region: TPR_15; pfam13429 314260002283 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 314260002284 binding surface 314260002285 TPR motif; other site 314260002286 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 314260002287 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 314260002288 active site 314260002289 catalytic site [active] 314260002290 substrate binding site [chemical binding]; other site 314260002291 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 314260002292 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 314260002293 CoA-binding site [chemical binding]; other site 314260002294 ATP-binding [chemical binding]; other site 314260002295 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 314260002296 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 314260002297 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 314260002298 shikimate binding site; other site 314260002299 NAD(P) binding site [chemical binding]; other site 314260002300 Maf-like protein; Region: Maf; pfam02545 314260002301 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 314260002302 active site 314260002303 dimer interface [polypeptide binding]; other site 314260002304 PEP synthetase regulatory protein; Provisional; Region: PRK05339 314260002305 uroporphyrinogen decarboxylase; Validated; Region: hemE; PRK00115 314260002306 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 314260002307 transcription termination factor Rho; Provisional; Region: rho; PRK09376 314260002308 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 314260002309 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 314260002310 RNA binding site [nucleotide binding]; other site 314260002311 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 314260002312 multimer interface [polypeptide binding]; other site 314260002313 Walker A motif; other site 314260002314 ATP binding site [chemical binding]; other site 314260002315 Walker B motif; other site 314260002316 Uncharacterized conserved protein [Function unknown]; Region: COG5361 314260002317 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 314260002318 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 314260002319 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 314260002320 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 314260002321 putative active site [active] 314260002322 catalytic site [active] 314260002323 putative metal binding site [ion binding]; other site 314260002324 oligomer interface [polypeptide binding]; other site 314260002325 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 314260002326 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 314260002327 trmE is a tRNA modification GTPase; Region: trmE; cd04164 314260002328 G1 box; other site 314260002329 GTP/Mg2+ binding site [chemical binding]; other site 314260002330 Switch I region; other site 314260002331 G2 box; other site 314260002332 Switch II region; other site 314260002333 G3 box; other site 314260002334 G4 box; other site 314260002335 G5 box; other site 314260002336 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 314260002337 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 314260002338 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314260002339 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 314260002340 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 314260002341 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 314260002342 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 314260002343 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 314260002344 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 314260002345 Magnesium ion binding site [ion binding]; other site 314260002346 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 314260002347 Magnesium ion binding site [ion binding]; other site 314260002348 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 314260002349 ParB-like nuclease domain; Region: ParB; smart00470 314260002350 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 314260002351 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 314260002352 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260002353 catalytic residue [active] 314260002354 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 314260002355 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 314260002356 putative active site [active] 314260002357 Zn binding site [ion binding]; other site 314260002358 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 314260002359 ferrochelatase; Reviewed; Region: hemH; PRK00035 314260002360 C-terminal domain interface [polypeptide binding]; other site 314260002361 active site 314260002362 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 314260002363 active site 314260002364 N-terminal domain interface [polypeptide binding]; other site 314260002365 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 314260002366 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260002367 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 314260002368 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 314260002369 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 314260002370 signal recognition particle protein; Provisional; Region: PRK10867 314260002371 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 314260002372 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 314260002373 P loop; other site 314260002374 GTP binding site [chemical binding]; other site 314260002375 Signal peptide binding domain; Region: SRP_SPB; pfam02978 314260002376 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 314260002377 RimM N-terminal domain; Region: RimM; pfam01782 314260002378 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 314260002379 PRC-barrel domain; Region: PRC; pfam05239 314260002380 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 314260002381 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 314260002382 putative tRNA-binding site [nucleotide binding]; other site 314260002383 B3/4 domain; Region: B3_4; pfam03483 314260002384 tRNA synthetase B5 domain; Region: B5; smart00874 314260002385 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 314260002386 dimer interface [polypeptide binding]; other site 314260002387 motif 1; other site 314260002388 motif 3; other site 314260002389 motif 2; other site 314260002390 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 314260002391 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 314260002392 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 314260002393 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 314260002394 dimer interface [polypeptide binding]; other site 314260002395 motif 1; other site 314260002396 active site 314260002397 motif 2; other site 314260002398 motif 3; other site 314260002399 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 314260002400 23S rRNA binding site [nucleotide binding]; other site 314260002401 L21 binding site [polypeptide binding]; other site 314260002402 L13 binding site [polypeptide binding]; other site 314260002403 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 314260002404 Smr domain; Region: Smr; pfam01713 314260002405 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 314260002406 MltA specific insert domain; Region: MltA; smart00925 314260002407 3D domain; Region: 3D; pfam06725 314260002408 Tim44-like domain; Region: Tim44; pfam04280 314260002409 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 314260002410 Preprotein translocase subunit SecB; Region: SecB; pfam02556 314260002411 SecA binding site; other site 314260002412 Preprotein binding site; other site 314260002413 two-component response regulator; Provisional; Region: PRK09191 314260002414 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 314260002415 active site 314260002416 phosphorylation site [posttranslational modification] 314260002417 intermolecular recognition site; other site 314260002418 dimerization interface [polypeptide binding]; other site 314260002419 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 314260002420 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 314260002421 ATP binding site [chemical binding]; other site 314260002422 substrate interface [chemical binding]; other site 314260002423 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 314260002424 trimer interface [polypeptide binding]; other site 314260002425 active site 314260002426 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 314260002427 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 314260002428 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 314260002429 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 314260002430 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 314260002431 substrate binding site [chemical binding]; other site 314260002432 active site 314260002433 catalytic residues [active] 314260002434 heterodimer interface [polypeptide binding]; other site 314260002435 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 314260002436 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 314260002437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260002438 catalytic residue [active] 314260002439 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 314260002440 active site 314260002441 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 314260002442 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 314260002443 IHF dimer interface [polypeptide binding]; other site 314260002444 IHF - DNA interface [nucleotide binding]; other site 314260002445 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 314260002446 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 314260002447 S-adenosylmethionine binding site [chemical binding]; other site 314260002448 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 314260002449 ABC1 family; Region: ABC1; cl17513 314260002450 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 314260002451 active site 314260002452 ATP binding site [chemical binding]; other site 314260002453 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 314260002454 Flavoprotein; Region: Flavoprotein; pfam02441 314260002455 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 314260002456 TraB family; Region: TraB; pfam01963 314260002457 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 314260002458 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260002459 Walker A/P-loop; other site 314260002460 ATP binding site [chemical binding]; other site 314260002461 Q-loop/lid; other site 314260002462 ABC transporter signature motif; other site 314260002463 Walker B; other site 314260002464 D-loop; other site 314260002465 H-loop/switch region; other site 314260002466 Zinc-finger domain; Region: zf-CHCC; pfam10276 314260002467 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 314260002468 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 314260002469 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260002470 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314260002471 Ligand binding site; other site 314260002472 Putative Catalytic site; other site 314260002473 DXD motif; other site 314260002474 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 314260002475 prephenate dehydrogenase; Validated; Region: PRK08507 314260002476 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 314260002477 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 314260002478 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314260002479 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314260002480 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314260002481 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 314260002482 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 314260002483 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 314260002484 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 314260002485 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 314260002486 Lipopolysaccharide-assembly; Region: LptE; pfam04390 314260002487 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 314260002488 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 314260002489 HIGH motif; other site 314260002490 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314260002491 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260002492 active site 314260002493 KMSKS motif; other site 314260002494 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 314260002495 tRNA binding surface [nucleotide binding]; other site 314260002496 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 314260002497 putative active site [active] 314260002498 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 314260002499 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 314260002500 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 314260002501 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 314260002502 Gram-negative porin; Region: Porin_4; pfam13609 314260002503 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 314260002504 thiamine phosphate binding site [chemical binding]; other site 314260002505 active site 314260002506 pyrophosphate binding site [ion binding]; other site 314260002507 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 314260002508 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314260002509 catalytic residue [active] 314260002510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260002511 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 314260002512 DNA binding site [nucleotide binding] 314260002513 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314260002514 putative active site [active] 314260002515 putative metal binding site [ion binding]; other site 314260002516 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314260002517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260002518 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 314260002519 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 314260002520 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 314260002521 NAD(P) binding site [chemical binding]; other site 314260002522 catalytic residues [active] 314260002523 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314260002524 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 314260002525 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 314260002526 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 314260002527 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 314260002528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314260002529 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260002530 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260002531 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 314260002532 Proline dehydrogenase; Region: Pro_dh; pfam01619 314260002533 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 314260002534 Glutamate binding site [chemical binding]; other site 314260002535 NAD binding site [chemical binding]; other site 314260002536 catalytic residues [active] 314260002537 Predicted ATPase [General function prediction only]; Region: COG1485 314260002538 AAA ATPase domain; Region: AAA_16; pfam13191 314260002539 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 314260002540 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 314260002541 tetramer interface [polypeptide binding]; other site 314260002542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260002543 catalytic residue [active] 314260002544 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 314260002545 amphipathic channel; other site 314260002546 Asn-Pro-Ala signature motifs; other site 314260002547 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 314260002548 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 314260002549 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 314260002550 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 314260002551 L-aspartate oxidase; Provisional; Region: PRK06175 314260002552 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 314260002553 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 314260002554 putative SdhC subunit interface [polypeptide binding]; other site 314260002555 putative proximal heme binding site [chemical binding]; other site 314260002556 putative Iron-sulfur protein interface [polypeptide binding]; other site 314260002557 putative proximal quinone binding site; other site 314260002558 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 314260002559 Iron-sulfur protein interface; other site 314260002560 proximal quinone binding site [chemical binding]; other site 314260002561 SdhD (CybS) interface [polypeptide binding]; other site 314260002562 proximal heme binding site [chemical binding]; other site 314260002563 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 314260002564 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 314260002565 Predicted metalloprotease [General function prediction only]; Region: COG2321 314260002566 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 314260002567 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 314260002568 Malic enzyme, N-terminal domain; Region: malic; pfam00390 314260002569 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 314260002570 putative NAD(P) binding site [chemical binding]; other site 314260002571 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 314260002572 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 314260002573 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 314260002574 nucleophilic elbow; other site 314260002575 catalytic triad; other site 314260002576 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 314260002577 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 314260002578 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 314260002579 Glycoprotease family; Region: Peptidase_M22; pfam00814 314260002580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260002581 Coenzyme A binding pocket [chemical binding]; other site 314260002582 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 314260002583 metal binding site 2 [ion binding]; metal-binding site 314260002584 putative DNA binding helix; other site 314260002585 metal binding site 1 [ion binding]; metal-binding site 314260002586 dimer interface [polypeptide binding]; other site 314260002587 structural Zn2+ binding site [ion binding]; other site 314260002588 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 314260002589 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 314260002590 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 314260002591 putative active site; other site 314260002592 catalytic triad [active] 314260002593 putative dimer interface [polypeptide binding]; other site 314260002594 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 314260002595 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 314260002596 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260002597 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 314260002598 sequence-specific DNA binding site [nucleotide binding]; other site 314260002599 salt bridge; other site 314260002600 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 314260002601 Domain of unknown function (DUF955); Region: DUF955; pfam06114 314260002602 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 314260002603 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 314260002604 tetramer interface [polypeptide binding]; other site 314260002605 active site 314260002606 Mg2+/Mn2+ binding site [ion binding]; other site 314260002607 glucosyltransferase MdoH; Provisional; Region: PRK05454 314260002608 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 314260002609 active site 314260002610 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 314260002611 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 314260002612 Hemerythrin-like domain; Region: Hr-like; cd12108 314260002613 Fe binding site [ion binding]; other site 314260002614 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 314260002615 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 314260002616 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260002617 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 314260002618 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 314260002619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 314260002620 CreA protein; Region: CreA; pfam05981 314260002621 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 314260002622 ArsC family; Region: ArsC; pfam03960 314260002623 catalytic residues [active] 314260002624 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 314260002625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260002626 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 314260002627 dimerization interface [polypeptide binding]; other site 314260002628 substrate binding pocket [chemical binding]; other site 314260002629 siroheme synthase; Provisional; Region: cysG; PRK10637 314260002630 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 314260002631 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 314260002632 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 314260002633 active site 314260002634 SAM binding site [chemical binding]; other site 314260002635 homodimer interface [polypeptide binding]; other site 314260002636 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 314260002637 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 314260002638 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314260002639 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314260002640 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 314260002641 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 314260002642 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 314260002643 Active Sites [active] 314260002644 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 314260002645 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 314260002646 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 314260002647 RNA binding site [nucleotide binding]; other site 314260002648 active site 314260002649 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 314260002650 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 314260002651 dimerization interface 3.5A [polypeptide binding]; other site 314260002652 active site 314260002653 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 314260002654 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 314260002655 putative active site [active] 314260002656 substrate binding site [chemical binding]; other site 314260002657 putative cosubstrate binding site; other site 314260002658 catalytic site [active] 314260002659 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 314260002660 substrate binding site [chemical binding]; other site 314260002661 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 314260002662 active site 314260002663 catalytic residues [active] 314260002664 metal binding site [ion binding]; metal-binding site 314260002665 RmuC family; Region: RmuC; pfam02646 314260002666 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314260002667 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 314260002668 substrate-cofactor binding pocket; other site 314260002669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260002670 catalytic residue [active] 314260002671 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 314260002672 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 314260002673 acyl-activating enzyme (AAE) consensus motif; other site 314260002674 putative AMP binding site [chemical binding]; other site 314260002675 putative active site [active] 314260002676 putative CoA binding site [chemical binding]; other site 314260002677 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260002678 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260002679 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314260002680 Protein export membrane protein; Region: SecD_SecF; cl14618 314260002681 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314260002682 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 314260002683 S-adenosylmethionine binding site [chemical binding]; other site 314260002684 hypothetical protein; Provisional; Region: PRK07505 314260002685 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 314260002686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260002687 catalytic residue [active] 314260002688 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 314260002689 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 314260002690 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260002691 N-terminal plug; other site 314260002692 ligand-binding site [chemical binding]; other site 314260002693 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 314260002694 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314260002695 acyl-activating enzyme (AAE) consensus motif; other site 314260002696 AMP binding site [chemical binding]; other site 314260002697 active site 314260002698 CoA binding site [chemical binding]; other site 314260002699 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 314260002700 NodB motif; other site 314260002701 putative active site [active] 314260002702 putative catalytic site [active] 314260002703 Zn binding site [ion binding]; other site 314260002704 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 314260002705 putative active site [active] 314260002706 Ap4A binding site [chemical binding]; other site 314260002707 nudix motif; other site 314260002708 putative metal binding site [ion binding]; other site 314260002709 diaminopimelate decarboxylase; Region: lysA; TIGR01048 314260002710 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 314260002711 active site 314260002712 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314260002713 substrate binding site [chemical binding]; other site 314260002714 catalytic residues [active] 314260002715 dimer interface [polypeptide binding]; other site 314260002716 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 314260002717 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 314260002718 Uncharacterized conserved protein [Function unknown]; Region: COG2353 314260002719 YGGT family; Region: YGGT; pfam02325 314260002720 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 314260002721 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 314260002722 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 314260002723 homodimer interface [polypeptide binding]; other site 314260002724 NADP binding site [chemical binding]; other site 314260002725 substrate binding site [chemical binding]; other site 314260002726 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 314260002727 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 314260002728 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 314260002729 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 314260002730 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 314260002731 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 314260002732 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 314260002733 active site 314260002734 (T/H)XGH motif; other site 314260002735 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 314260002736 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 314260002737 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260002738 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 314260002739 C-terminal peptidase (prc); Region: prc; TIGR00225 314260002740 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 314260002741 protein binding site [polypeptide binding]; other site 314260002742 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 314260002743 Catalytic dyad [active] 314260002744 Integral membrane protein TerC family; Region: TerC; cl10468 314260002745 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 314260002746 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 314260002747 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 314260002748 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314260002749 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 314260002750 beta subunit interaction interface [polypeptide binding]; other site 314260002751 Walker A motif; other site 314260002752 ATP binding site [chemical binding]; other site 314260002753 Walker B motif; other site 314260002754 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314260002755 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 314260002756 core domain interface [polypeptide binding]; other site 314260002757 delta subunit interface [polypeptide binding]; other site 314260002758 epsilon subunit interface [polypeptide binding]; other site 314260002759 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 314260002760 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 314260002761 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 314260002762 alpha subunit interaction interface [polypeptide binding]; other site 314260002763 Walker A motif; other site 314260002764 ATP binding site [chemical binding]; other site 314260002765 Walker B motif; other site 314260002766 inhibitor binding site; inhibition site 314260002767 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 314260002768 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260002769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260002770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 314260002771 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 314260002772 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 314260002773 gamma subunit interface [polypeptide binding]; other site 314260002774 epsilon subunit interface [polypeptide binding]; other site 314260002775 LBP interface [polypeptide binding]; other site 314260002776 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 314260002777 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 314260002778 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 314260002779 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 314260002780 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 314260002781 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314260002782 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314260002783 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 314260002784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260002785 putative substrate translocation pore; other site 314260002786 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 314260002787 Membrane transport protein; Region: Mem_trans; cl09117 314260002788 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 314260002789 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 314260002790 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 314260002791 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 314260002792 DNA binding site [nucleotide binding] 314260002793 active site 314260002794 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 314260002795 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 314260002796 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 314260002797 Autotransporter beta-domain; Region: Autotransporter; smart00869 314260002798 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 314260002799 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 314260002800 generic binding surface I; other site 314260002801 generic binding surface II; other site 314260002802 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 314260002803 putative active site [active] 314260002804 putative catalytic site [active] 314260002805 putative Mg binding site IVb [ion binding]; other site 314260002806 putative phosphate binding site [ion binding]; other site 314260002807 putative DNA binding site [nucleotide binding]; other site 314260002808 putative Mg binding site IVa [ion binding]; other site 314260002809 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 314260002810 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 314260002811 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 314260002812 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 314260002813 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 314260002814 GTPase CgtA; Reviewed; Region: obgE; PRK12299 314260002815 GTP1/OBG; Region: GTP1_OBG; pfam01018 314260002816 Obg GTPase; Region: Obg; cd01898 314260002817 G1 box; other site 314260002818 GTP/Mg2+ binding site [chemical binding]; other site 314260002819 Switch I region; other site 314260002820 G2 box; other site 314260002821 G3 box; other site 314260002822 Switch II region; other site 314260002823 G4 box; other site 314260002824 G5 box; other site 314260002825 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 314260002826 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 314260002827 putative NAD(P) binding site [chemical binding]; other site 314260002828 active site 314260002829 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314260002830 active site 314260002831 CoA binding site [chemical binding]; other site 314260002832 AMP binding site [chemical binding]; other site 314260002833 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 314260002834 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314260002835 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 314260002836 ligand binding site [chemical binding]; other site 314260002837 flexible hinge region; other site 314260002838 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 314260002839 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 314260002840 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 314260002841 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 314260002842 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 314260002843 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 314260002844 BON domain; Region: BON; pfam04972 314260002845 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314260002846 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 314260002847 Type IV pili component [Cell motility and secretion]; Region: COG5461 314260002848 AAA domain; Region: AAA_31; pfam13614 314260002849 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 314260002850 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 314260002851 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 314260002852 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 314260002853 ATP binding site [chemical binding]; other site 314260002854 Walker A motif; other site 314260002855 hexamer interface [polypeptide binding]; other site 314260002856 Walker B motif; other site 314260002857 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 314260002858 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314260002859 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 314260002860 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314260002861 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 314260002862 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 314260002863 binding surface 314260002864 TPR motif; other site 314260002865 multifunctional aminopeptidase A; Provisional; Region: PRK00913 314260002866 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 314260002867 interface (dimer of trimers) [polypeptide binding]; other site 314260002868 Substrate-binding/catalytic site; other site 314260002869 Zn-binding sites [ion binding]; other site 314260002870 PAS fold; Region: PAS_7; pfam12860 314260002871 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260002872 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 314260002873 dimer interface [polypeptide binding]; other site 314260002874 phosphorylation site [posttranslational modification] 314260002875 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 314260002876 ATP binding site [chemical binding]; other site 314260002877 Mg2+ binding site [ion binding]; other site 314260002878 G-X-G motif; other site 314260002879 GcrA cell cycle regulator; Region: GcrA; cl11564 314260002880 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 314260002881 ABC-2 type transporter; Region: ABC2_membrane; cl17235 314260002882 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 314260002883 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 314260002884 dimerization interface [polypeptide binding]; other site 314260002885 domain crossover interface; other site 314260002886 redox-dependent activation switch; other site 314260002887 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 314260002888 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 314260002889 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 314260002890 RNase E interface [polypeptide binding]; other site 314260002891 trimer interface [polypeptide binding]; other site 314260002892 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 314260002893 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 314260002894 RNase E interface [polypeptide binding]; other site 314260002895 trimer interface [polypeptide binding]; other site 314260002896 active site 314260002897 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 314260002898 putative nucleic acid binding region [nucleotide binding]; other site 314260002899 G-X-X-G motif; other site 314260002900 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 314260002901 RNA binding site [nucleotide binding]; other site 314260002902 domain interface; other site 314260002903 Methyltransferase domain; Region: Methyltransf_24; pfam13578 314260002904 Haemolysin-III related; Region: HlyIII; cl03831 314260002905 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 314260002906 glutathione synthetase; Provisional; Region: PRK05246 314260002907 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 314260002908 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 314260002909 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 314260002910 metal binding site [ion binding]; metal-binding site 314260002911 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 314260002912 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 314260002913 substrate binding site [chemical binding]; other site 314260002914 glutamase interaction surface [polypeptide binding]; other site 314260002915 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 314260002916 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 314260002917 putative active site [active] 314260002918 oxyanion strand; other site 314260002919 catalytic triad [active] 314260002920 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 314260002921 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 314260002922 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 314260002923 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 314260002924 homotrimer interaction site [polypeptide binding]; other site 314260002925 putative active site [active] 314260002926 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 314260002927 putative active site pocket [active] 314260002928 4-fold oligomerization interface [polypeptide binding]; other site 314260002929 metal binding residues [ion binding]; metal-binding site 314260002930 3-fold/trimer interface [polypeptide binding]; other site 314260002931 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 314260002932 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 314260002933 active site 314260002934 HslU subunit interaction site [polypeptide binding]; other site 314260002935 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 314260002936 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 314260002937 Walker A motif; other site 314260002938 ATP binding site [chemical binding]; other site 314260002939 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 314260002940 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 314260002941 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 314260002942 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 314260002943 substrate binding site [chemical binding]; other site 314260002944 ATP binding site [chemical binding]; other site 314260002945 muropeptide transporter; Reviewed; Region: ampG; PRK11902 314260002946 muropeptide transporter; Validated; Region: ampG; cl17669 314260002947 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 314260002948 16S/18S rRNA binding site [nucleotide binding]; other site 314260002949 S13e-L30e interaction site [polypeptide binding]; other site 314260002950 25S rRNA binding site [nucleotide binding]; other site 314260002951 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 314260002952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260002953 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260002954 putative active site [active] 314260002955 heme pocket [chemical binding]; other site 314260002956 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; cl00080 314260002957 dimer interface [polypeptide binding]; other site 314260002958 phosphorylation site [posttranslational modification] 314260002959 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 314260002960 ATP binding site [chemical binding]; other site 314260002961 Mg2+ binding site [ion binding]; other site 314260002962 G-X-G motif; other site 314260002963 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260002964 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 314260002965 active site 314260002966 phosphorylation site [posttranslational modification] 314260002967 intermolecular recognition site; other site 314260002968 dimerization interface [polypeptide binding]; other site 314260002969 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 314260002970 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 314260002971 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 314260002972 S-adenosylmethionine binding site [chemical binding]; other site 314260002973 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 314260002974 Antirestriction protein (ArdA); Region: ArdA; pfam07275 314260002975 ParB-like nuclease domain; Region: ParB; smart00470 314260002976 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260002977 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 314260002978 Helix-turn-helix domain; Region: HTH_17; pfam12728 314260002979 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 314260002980 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 314260002981 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 314260002982 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 314260002983 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 314260002984 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 314260002985 TIGR02687 family protein; Region: TIGR02687 314260002986 PglZ domain; Region: PglZ; pfam08665 314260002987 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 314260002988 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 314260002989 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 314260002990 WYL domain; Region: WYL; pfam13280 314260002991 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 314260002992 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 314260002993 Walker A motif; other site 314260002994 ATP binding site [chemical binding]; other site 314260002995 Walker B motif; other site 314260002996 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 314260002997 Family description; Region: UvrD_C_2; pfam13538 314260002998 putative transposase OrfB; Reviewed; Region: PHA02517 314260002999 HTH-like domain; Region: HTH_21; pfam13276 314260003000 Integrase core domain; Region: rve; pfam00665 314260003001 Integrase core domain; Region: rve_3; pfam13683 314260003002 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 314260003003 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 314260003004 ATP binding site [chemical binding]; other site 314260003005 Walker A motif; other site 314260003006 hexamer interface [polypeptide binding]; other site 314260003007 Walker B motif; other site 314260003008 TrbC/VIRB2 family; Region: TrbC; pfam04956 314260003009 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 314260003010 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 314260003011 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 314260003012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260003013 Walker A/P-loop; other site 314260003014 ATP binding site [chemical binding]; other site 314260003015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260003016 Walker B; other site 314260003017 D-loop; other site 314260003018 H-loop/switch region; other site 314260003019 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 314260003020 conjugal transfer protein TrbL; Provisional; Region: PRK13875 314260003021 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 314260003022 conjugal transfer protein TrbF; Provisional; Region: PRK13872 314260003023 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 314260003024 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 314260003025 VirB7 interaction site; other site 314260003026 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 314260003027 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 314260003028 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260003029 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 314260003030 5' RNA guide strand anchoring site; other site 314260003031 active site 314260003032 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 314260003033 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 314260003034 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 314260003035 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 314260003036 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 314260003037 active site 314260003038 DNA binding site [nucleotide binding] 314260003039 Int/Topo IB signature motif; other site 314260003040 AAA-like domain; Region: AAA_10; pfam12846 314260003041 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 314260003042 Walker A motif; other site 314260003043 ATP binding site [chemical binding]; other site 314260003044 Walker B motif; other site 314260003045 Protein of unknown function DUF45; Region: DUF45; pfam01863 314260003046 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 314260003047 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 314260003048 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314260003049 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 314260003050 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314260003051 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 314260003052 HsdM N-terminal domain; Region: HsdM_N; pfam12161 314260003053 Methyltransferase domain; Region: Methyltransf_26; pfam13659 314260003054 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 314260003055 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 314260003056 Antirestriction protein (ArdA); Region: ArdA; pfam07275 314260003057 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 314260003058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314260003059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260003060 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 314260003061 putative effector binding pocket; other site 314260003062 dimerization interface [polypeptide binding]; other site 314260003063 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 314260003064 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 314260003065 ParB-like nuclease domain; Region: ParBc; pfam02195 314260003066 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 314260003067 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 314260003068 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 314260003069 active site 314260003070 DNA binding site [nucleotide binding] 314260003071 Int/Topo IB signature motif; other site 314260003072 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 314260003073 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 314260003074 catalytic residues [active] 314260003075 catalytic nucleophile [active] 314260003076 Recombinase; Region: Recombinase; pfam07508 314260003077 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 314260003078 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 314260003079 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 314260003080 Walker A motif; other site 314260003081 ATP binding site [chemical binding]; other site 314260003082 Walker B motif; other site 314260003083 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 314260003084 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; cl02529 314260003085 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 314260003086 Protein of unknown function (DUF499); Region: DUF499; pfam04465 314260003087 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 314260003088 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 314260003089 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 314260003090 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 314260003091 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 314260003092 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 314260003093 ATP binding site [chemical binding]; other site 314260003094 putative Mg++ binding site [ion binding]; other site 314260003095 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 314260003096 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 314260003097 nucleotide binding region [chemical binding]; other site 314260003098 ATP-binding site [chemical binding]; other site 314260003099 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 314260003100 WYL domain; Region: WYL; pfam13280 314260003101 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 314260003102 5' RNA guide strand anchoring site; other site 314260003103 active site 314260003104 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 314260003105 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 314260003106 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 314260003107 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 314260003108 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260003109 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260003110 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 314260003111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260003112 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 314260003113 dimerization interface [polypeptide binding]; other site 314260003114 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_15; cd04673 314260003115 nudix motif; other site 314260003116 enoyl-CoA hydratase; Provisional; Region: PRK05980 314260003117 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 314260003118 substrate binding site [chemical binding]; other site 314260003119 oxyanion hole (OAH) forming residues; other site 314260003120 trimer interface [polypeptide binding]; other site 314260003121 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260003122 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260003123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314260003124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260003125 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 314260003126 dimerization interface [polypeptide binding]; other site 314260003127 Lysine efflux permease [General function prediction only]; Region: COG1279 314260003128 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 314260003129 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314260003130 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314260003131 MarR family; Region: MarR_2; pfam12802 314260003132 MarR family; Region: MarR_2; cl17246 314260003133 Cupin domain; Region: Cupin_2; pfam07883 314260003134 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 314260003135 Transcriptional regulators [Transcription]; Region: MarR; COG1846 314260003136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314260003137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260003138 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 314260003139 dimerization interface [polypeptide binding]; other site 314260003140 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 314260003141 active site 314260003142 catalytic residues [active] 314260003143 DNA binding site [nucleotide binding] 314260003144 Int/Topo IB signature motif; other site 314260003145 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 314260003146 DDE domain; Region: DDE_Tnp_IS240; pfam13610 314260003147 Integrase core domain; Region: rve; pfam00665 314260003148 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 314260003149 Sulfate transporter family; Region: Sulfate_transp; pfam00916 314260003150 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314260003151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260003152 NAD(P) binding site [chemical binding]; other site 314260003153 active site 314260003154 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 314260003155 FliG C-terminal domain; Region: FliG_C; pfam01706 314260003156 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314260003157 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 314260003158 acetolactate synthase; Reviewed; Region: PRK08322 314260003159 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314260003160 PYR/PP interface [polypeptide binding]; other site 314260003161 dimer interface [polypeptide binding]; other site 314260003162 TPP binding site [chemical binding]; other site 314260003163 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314260003164 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 314260003165 TPP-binding site [chemical binding]; other site 314260003166 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 314260003167 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314260003168 active site 314260003169 dimerization interface [polypeptide binding]; other site 314260003170 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 314260003171 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314260003172 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 314260003173 acyl-activating enzyme (AAE) consensus motif; other site 314260003174 acyl-activating enzyme (AAE) consensus motif; other site 314260003175 putative AMP binding site [chemical binding]; other site 314260003176 putative active site [active] 314260003177 putative CoA binding site [chemical binding]; other site 314260003178 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 314260003179 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 314260003180 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314260003181 O-Antigen ligase; Region: Wzy_C; pfam04932 314260003182 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 314260003183 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 314260003184 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 314260003185 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 314260003186 dimer interface [polypeptide binding]; other site 314260003187 decamer (pentamer of dimers) interface [polypeptide binding]; other site 314260003188 catalytic triad [active] 314260003189 peroxidatic and resolving cysteines [active] 314260003190 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 314260003191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260003192 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 314260003193 dimerization interface [polypeptide binding]; other site 314260003194 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 314260003195 Domain of unknown function DUF20; Region: UPF0118; pfam01594 314260003196 aminotransferase; Validated; Region: PRK09148 314260003197 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 314260003198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260003199 homodimer interface [polypeptide binding]; other site 314260003200 catalytic residue [active] 314260003201 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 314260003202 Strictosidine synthase; Region: Str_synth; pfam03088 314260003203 tartrate dehydrogenase; Region: TTC; TIGR02089 314260003204 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 314260003205 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 314260003206 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 314260003207 substrate binding site [chemical binding]; other site 314260003208 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 314260003209 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 314260003210 substrate binding site [chemical binding]; other site 314260003211 ligand binding site [chemical binding]; other site 314260003212 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 314260003213 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 314260003214 active site 314260003215 catalytic residues [active] 314260003216 metal binding site [ion binding]; metal-binding site 314260003217 threonine dehydratase; Provisional; Region: PRK07334 314260003218 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 314260003219 tetramer interface [polypeptide binding]; other site 314260003220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260003221 catalytic residue [active] 314260003222 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 314260003223 ACT domain; Region: ACT_5; pfam13710 314260003224 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 314260003225 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 314260003226 PYR/PP interface [polypeptide binding]; other site 314260003227 dimer interface [polypeptide binding]; other site 314260003228 TPP binding site [chemical binding]; other site 314260003229 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 314260003230 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 314260003231 TPP-binding site [chemical binding]; other site 314260003232 dimer interface [polypeptide binding]; other site 314260003233 ketol-acid reductoisomerase; Provisional; Region: PRK05479 314260003234 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 314260003235 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 314260003236 Dehydratase family; Region: ILVD_EDD; cl00340 314260003237 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 314260003238 active site 314260003239 phosphorylation site [posttranslational modification] 314260003240 intermolecular recognition site; other site 314260003241 dimerization interface [polypeptide binding]; other site 314260003242 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 314260003243 catalytic site [active] 314260003244 putative active site [active] 314260003245 putative substrate binding site [chemical binding]; other site 314260003246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 314260003247 OstA-like protein; Region: OstA; pfam03968 314260003248 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 314260003249 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 314260003250 Walker A/P-loop; other site 314260003251 ATP binding site [chemical binding]; other site 314260003252 Q-loop/lid; other site 314260003253 ABC transporter signature motif; other site 314260003254 Walker B; other site 314260003255 D-loop; other site 314260003256 H-loop/switch region; other site 314260003257 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 314260003258 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 314260003259 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 314260003260 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 314260003261 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 314260003262 30S subunit binding site; other site 314260003263 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 314260003264 active site 314260003265 phosphorylation site [posttranslational modification] 314260003266 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 314260003267 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 314260003268 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314260003269 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314260003270 SLBB domain; Region: SLBB; pfam10531 314260003271 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 314260003272 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 314260003273 Chain length determinant protein; Region: Wzz; cl15801 314260003274 Chain length determinant protein; Region: Wzz; cl15801 314260003275 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314260003276 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260003277 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260003278 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 314260003279 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 314260003280 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 314260003281 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 314260003282 HIGH motif; other site 314260003283 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 314260003284 active site 314260003285 dimer interface [polypeptide binding]; other site 314260003286 KMSKS motif; other site 314260003287 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260003288 PAS domain; Region: PAS; smart00091 314260003289 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 314260003290 dimer interface [polypeptide binding]; other site 314260003291 phosphorylation site [posttranslational modification] 314260003292 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 314260003293 ATP binding site [chemical binding]; other site 314260003294 Mg2+ binding site [ion binding]; other site 314260003295 G-X-G motif; other site 314260003296 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 314260003297 PhoU domain; Region: PhoU; pfam01895 314260003298 PhoU domain; Region: PhoU; pfam01895 314260003299 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 314260003300 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 314260003301 active site 314260003302 phosphorylation site [posttranslational modification] 314260003303 intermolecular recognition site; other site 314260003304 dimerization interface [polypeptide binding]; other site 314260003305 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 314260003306 DNA binding site [nucleotide binding] 314260003307 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 314260003308 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314260003309 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 314260003310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314260003311 Putative phosphatase (DUF442); Region: DUF442; cl17385 314260003312 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 314260003313 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 314260003314 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 314260003315 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314260003316 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314260003317 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 314260003318 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 314260003319 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314260003320 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 314260003321 TPR motif; other site 314260003322 binding surface 314260003323 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 314260003324 binding surface 314260003325 TPR motif; other site 314260003326 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 314260003327 binding surface 314260003328 TPR motif; other site 314260003329 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 314260003330 Uncharacterized conserved protein [Function unknown]; Region: COG4121 314260003331 Transglycosylase SLT domain; Region: SLT_2; pfam13406 314260003332 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 314260003333 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314260003334 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314260003335 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 314260003336 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260003337 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260003338 Beta-lactamase; Region: Beta-lactamase; pfam00144 314260003339 Predicted transcriptional regulator [Transcription]; Region: COG2345 314260003340 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 314260003341 dimer interface [polypeptide binding]; other site 314260003342 phosphorylation site [posttranslational modification] 314260003343 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 314260003344 ATP binding site [chemical binding]; other site 314260003345 Mg2+ binding site [ion binding]; other site 314260003346 G-X-G motif; other site 314260003347 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 314260003348 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 314260003349 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 314260003350 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 314260003351 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 314260003352 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 314260003353 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 314260003354 substrate binding site [chemical binding]; other site 314260003355 oxyanion hole (OAH) forming residues; other site 314260003356 trimer interface [polypeptide binding]; other site 314260003357 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 314260003358 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260003359 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 314260003360 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260003361 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314260003362 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314260003363 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 314260003364 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 314260003365 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314260003366 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 314260003367 Class I ribonucleotide reductase; Region: RNR_I; cd01679 314260003368 active site 314260003369 dimer interface [polypeptide binding]; other site 314260003370 catalytic residues [active] 314260003371 effector binding site; other site 314260003372 R2 peptide binding site; other site 314260003373 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 314260003374 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 314260003375 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 314260003376 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314260003377 Walker A/P-loop; other site 314260003378 ATP binding site [chemical binding]; other site 314260003379 Q-loop/lid; other site 314260003380 ABC transporter signature motif; other site 314260003381 Walker B; other site 314260003382 D-loop; other site 314260003383 H-loop/switch region; other site 314260003384 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 314260003385 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 314260003386 COG4 transport protein; Region: COG4; cl07072 314260003387 RmuC family; Region: RmuC; pfam02646 314260003388 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 314260003389 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 314260003390 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 314260003391 [2Fe-2S] cluster binding site [ion binding]; other site 314260003392 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 314260003393 hydrophobic ligand binding site; other site 314260003394 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260003395 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260003396 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 314260003397 putative ADP-binding pocket [chemical binding]; other site 314260003398 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 314260003399 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 314260003400 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 314260003401 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 314260003402 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 314260003403 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 314260003404 putative active site pocket [active] 314260003405 dimerization interface [polypeptide binding]; other site 314260003406 putative catalytic residue [active] 314260003407 epoxyqueuosine reductase; Region: TIGR00276 314260003408 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 314260003409 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314260003410 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 314260003411 active site 314260003412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260003413 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314260003414 NAD(P) binding site [chemical binding]; other site 314260003415 active site 314260003416 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 314260003417 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 314260003418 heme exporter protein CcmC; Region: ccmC; TIGR01191 314260003419 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 314260003420 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 314260003421 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 314260003422 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314260003423 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314260003424 WHG domain; Region: WHG; pfam13305 314260003425 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 314260003426 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 314260003427 Strictosidine synthase; Region: Str_synth; pfam03088 314260003428 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 314260003429 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 314260003430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260003431 catalytic residue [active] 314260003432 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314260003433 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 314260003434 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 314260003435 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 314260003436 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 314260003437 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 314260003438 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 314260003439 lipoyl attachment site [posttranslational modification]; other site 314260003440 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 314260003441 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 314260003442 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260003443 catalytic residue [active] 314260003444 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 314260003445 tetramer interface [polypeptide binding]; other site 314260003446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260003447 catalytic residue [active] 314260003448 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314260003449 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 314260003450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260003451 putative ADP-binding pocket [chemical binding]; other site 314260003452 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 314260003453 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 314260003454 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 314260003455 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 314260003456 Ca2+ binding site [ion binding]; other site 314260003457 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 314260003458 Ca2+ binding site [ion binding]; other site 314260003459 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 314260003460 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260003461 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 314260003462 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314260003463 O-Antigen ligase; Region: Wzy_C; pfam04932 314260003464 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 314260003465 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260003466 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 314260003467 active site 314260003468 Acyltransferase family; Region: Acyl_transf_3; pfam01757 314260003469 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 314260003470 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260003471 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 314260003472 active site 314260003473 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314260003474 O-Antigen ligase; Region: Wzy_C; pfam04932 314260003475 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 314260003476 Chain length determinant protein; Region: Wzz; pfam02706 314260003477 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314260003478 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314260003479 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314260003480 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 314260003481 SLBB domain; Region: SLBB; pfam10531 314260003482 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 314260003483 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 314260003484 Chain length determinant protein; Region: Wzz; cl15801 314260003485 Chain length determinant protein; Region: Wzz; cl15801 314260003486 Oligosaccharide biosynthesis protein Alg14 like; Region: Alg14; pfam08660 314260003487 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; pfam04101 314260003488 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 314260003489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 314260003490 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 314260003491 Walker A motif; other site 314260003492 ATP binding site [chemical binding]; other site 314260003493 Walker B motif; other site 314260003494 arginine finger; other site 314260003495 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 314260003496 NADH(P)-binding; Region: NAD_binding_10; pfam13460 314260003497 NAD(P) binding site [chemical binding]; other site 314260003498 putative active site [active] 314260003499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260003500 Coenzyme A binding pocket [chemical binding]; other site 314260003501 Predicted amidohydrolase [General function prediction only]; Region: COG0388 314260003502 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 314260003503 putative active site [active] 314260003504 catalytic triad [active] 314260003505 putative dimer interface [polypeptide binding]; other site 314260003506 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 314260003507 oxidase reductase; Provisional; Region: PTZ00273 314260003508 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 314260003509 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 314260003510 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 314260003511 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 314260003512 active site 314260003513 catalytic tetrad [active] 314260003514 haloalkane dehalogenase; Provisional; Region: PRK00870 314260003515 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 314260003516 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 314260003517 inhibitor-cofactor binding pocket; inhibition site 314260003518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260003519 catalytic residue [active] 314260003520 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314260003521 Sel1-like repeats; Region: SEL1; smart00671 314260003522 Sel1-like repeats; Region: SEL1; smart00671 314260003523 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 314260003524 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 314260003525 Bacterial PH domain; Region: DUF304; pfam03703 314260003526 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 314260003527 dimer interface [polypeptide binding]; other site 314260003528 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314260003529 ligand binding site [chemical binding]; other site 314260003530 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 314260003531 GAF domain; Region: GAF_2; pfam13185 314260003532 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 314260003533 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260003534 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260003535 Walker A/P-loop; other site 314260003536 ATP binding site [chemical binding]; other site 314260003537 Q-loop/lid; other site 314260003538 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260003539 ABC transporter signature motif; other site 314260003540 Walker B; other site 314260003541 D-loop; other site 314260003542 ABC transporter; Region: ABC_tran_2; pfam12848 314260003543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 314260003544 Predicted membrane protein [Function unknown]; Region: COG2261 314260003545 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260003546 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 314260003547 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 314260003548 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 314260003549 glutaminase; Provisional; Region: PRK00971 314260003550 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314260003551 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260003552 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260003553 Phytase; Region: Phytase; cl17685 314260003554 Predicted dehydrogenase [General function prediction only]; Region: COG0579 314260003555 hydroxyglutarate oxidase; Provisional; Region: PRK11728 314260003556 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 314260003557 active site 1 [active] 314260003558 active site 2 [active] 314260003559 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 314260003560 ThiC-associated domain; Region: ThiC-associated; pfam13667 314260003561 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 314260003562 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 314260003563 DNA-binding site [nucleotide binding]; DNA binding site 314260003564 RNA-binding motif; other site 314260003565 Uncharacterized conserved protein [Function unknown]; Region: COG3268 314260003566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260003567 citrate synthase; Provisional; Region: PRK14033 314260003568 Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-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...; Region: DsCS_like; cd06111 314260003569 dimer interface [polypeptide binding]; other site 314260003570 active site 314260003571 citrylCoA binding site [chemical binding]; other site 314260003572 oxalacetate/citrate binding site [chemical binding]; other site 314260003573 coenzyme A binding site [chemical binding]; other site 314260003574 catalytic triad [active] 314260003575 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 314260003576 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 314260003577 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 314260003578 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 314260003579 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 314260003580 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 314260003581 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 314260003582 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 314260003583 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 314260003584 dimer interface [polypeptide binding]; other site 314260003585 active site 314260003586 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 314260003587 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 314260003588 substrate binding site [chemical binding]; other site 314260003589 oxyanion hole (OAH) forming residues; other site 314260003590 trimer interface [polypeptide binding]; other site 314260003591 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 314260003592 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314260003593 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 314260003594 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 314260003595 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 314260003596 active site 314260003597 AAA domain; Region: AAA_30; pfam13604 314260003598 AAA domain; Region: AAA_22; pfam13401 314260003599 Family description; Region: UvrD_C_2; pfam13538 314260003600 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 314260003601 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 314260003602 FMN binding site [chemical binding]; other site 314260003603 active site 314260003604 substrate binding site [chemical binding]; other site 314260003605 catalytic residue [active] 314260003606 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 314260003607 intracellular protease, PfpI family; Region: PfpI; TIGR01382 314260003608 proposed catalytic triad [active] 314260003609 conserved cys residue [active] 314260003610 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 314260003611 putative catalytic site [active] 314260003612 putative phosphate binding site [ion binding]; other site 314260003613 active site 314260003614 metal binding site A [ion binding]; metal-binding site 314260003615 DNA binding site [nucleotide binding] 314260003616 putative AP binding site [nucleotide binding]; other site 314260003617 putative metal binding site B [ion binding]; other site 314260003618 MAPEG family; Region: MAPEG; pfam01124 314260003619 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 314260003620 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 314260003621 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314260003622 Zn2+ binding site [ion binding]; other site 314260003623 Mg2+ binding site [ion binding]; other site 314260003624 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 314260003625 Sporulation related domain; Region: SPOR; pfam05036 314260003626 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 314260003627 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 314260003628 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 314260003629 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 314260003630 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 314260003631 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 314260003632 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 314260003633 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 314260003634 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 314260003635 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 314260003636 dimer interface [polypeptide binding]; other site 314260003637 active site 314260003638 glycine-pyridoxal phosphate binding site [chemical binding]; other site 314260003639 folate binding site [chemical binding]; other site 314260003640 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 314260003641 ATP cone domain; Region: ATP-cone; pfam03477 314260003642 putative RNA binding site [nucleotide binding]; other site 314260003643 transcription antitermination factor NusB; Region: nusB; TIGR01951 314260003644 thiamine monophosphate kinase; Provisional; Region: PRK05731 314260003645 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 314260003646 ATP binding site [chemical binding]; other site 314260003647 dimerization interface [polypeptide binding]; other site 314260003648 Dehydroquinase class II; Region: DHquinase_II; pfam01220 314260003649 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 314260003650 trimer interface [polypeptide binding]; other site 314260003651 active site 314260003652 dimer interface [polypeptide binding]; other site 314260003653 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 314260003654 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 314260003655 Substrate binding site; other site 314260003656 Cupin domain; Region: Cupin_2; cl17218 314260003657 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 314260003658 dimerization interface [polypeptide binding]; other site 314260003659 putative active cleft [active] 314260003660 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314260003661 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 314260003662 NAD binding site [chemical binding]; other site 314260003663 homodimer interface [polypeptide binding]; other site 314260003664 active site 314260003665 substrate binding site [chemical binding]; other site 314260003666 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 314260003667 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 314260003668 PrkA family serine protein kinase; Provisional; Region: PRK15455 314260003669 AAA ATPase domain; Region: AAA_16; pfam13191 314260003670 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 314260003671 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314260003672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260003673 NAD(P) binding site [chemical binding]; other site 314260003674 active site 314260003675 BON domain; Region: BON; pfam04972 314260003676 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 314260003677 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260003678 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 314260003679 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260003680 active site 314260003681 nucleotide binding site [chemical binding]; other site 314260003682 HIGH motif; other site 314260003683 KMSKS motif; other site 314260003684 tellurite resistance protein terB; Region: terB; cd07176 314260003685 putative metal binding site [ion binding]; other site 314260003686 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 314260003687 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 314260003688 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314260003689 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 314260003690 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 314260003691 quinone interaction residues [chemical binding]; other site 314260003692 active site 314260003693 catalytic residues [active] 314260003694 FMN binding site [chemical binding]; other site 314260003695 substrate binding site [chemical binding]; other site 314260003696 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260003697 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 314260003698 dimer interface [polypeptide binding]; other site 314260003699 phosphorylation site [posttranslational modification] 314260003700 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 314260003701 ATP binding site [chemical binding]; other site 314260003702 Mg2+ binding site [ion binding]; other site 314260003703 G-X-G motif; other site 314260003704 Response regulator receiver domain; Region: Response_reg; pfam00072 314260003705 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 314260003706 active site 314260003707 phosphorylation site [posttranslational modification] 314260003708 intermolecular recognition site; other site 314260003709 dimerization interface [polypeptide binding]; other site 314260003710 cytidylate kinase; Provisional; Region: cmk; PRK00023 314260003711 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 314260003712 CMP-binding site; other site 314260003713 The sites determining sugar specificity; other site 314260003714 methionine sulfoxide reductase A; Provisional; Region: PRK14054 314260003715 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 314260003716 COQ9; Region: COQ9; pfam08511 314260003717 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 314260003718 Pirin-related protein [General function prediction only]; Region: COG1741 314260003719 Pirin; Region: Pirin; pfam02678 314260003720 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 314260003721 Protein of unknown function, DUF481; Region: DUF481; pfam04338 314260003722 Protein of unknown function, DUF606; Region: DUF606; pfam04657 314260003723 lipoate-protein ligase B; Provisional; Region: PRK14341 314260003724 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 314260003725 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 314260003726 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 314260003727 peptide binding site [polypeptide binding]; other site 314260003728 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 314260003729 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 314260003730 dimer interface [polypeptide binding]; other site 314260003731 conserved gate region; other site 314260003732 putative PBP binding loops; other site 314260003733 ABC-ATPase subunit interface; other site 314260003734 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 314260003735 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 314260003736 dimer interface [polypeptide binding]; other site 314260003737 conserved gate region; other site 314260003738 putative PBP binding loops; other site 314260003739 ABC-ATPase subunit interface; other site 314260003740 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 314260003741 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314260003742 Walker A/P-loop; other site 314260003743 ATP binding site [chemical binding]; other site 314260003744 Q-loop/lid; other site 314260003745 ABC transporter signature motif; other site 314260003746 Walker B; other site 314260003747 D-loop; other site 314260003748 H-loop/switch region; other site 314260003749 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314260003750 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 314260003751 Walker A/P-loop; other site 314260003752 ATP binding site [chemical binding]; other site 314260003753 Q-loop/lid; other site 314260003754 ABC transporter signature motif; other site 314260003755 Walker B; other site 314260003756 D-loop; other site 314260003757 H-loop/switch region; other site 314260003758 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 314260003759 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 314260003760 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 314260003761 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314260003762 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260003763 N-terminal plug; other site 314260003764 ligand-binding site [chemical binding]; other site 314260003765 Cytochrome c; Region: Cytochrom_C; cl11414 314260003766 Cytochrome c; Region: Cytochrom_C; pfam00034 314260003767 PAS domain S-box; Region: sensory_box; TIGR00229 314260003768 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260003769 putative active site [active] 314260003770 heme pocket [chemical binding]; other site 314260003771 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; cl00080 314260003772 dimer interface [polypeptide binding]; other site 314260003773 phosphorylation site [posttranslational modification] 314260003774 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 314260003775 ATP binding site [chemical binding]; other site 314260003776 Mg2+ binding site [ion binding]; other site 314260003777 G-X-G motif; other site 314260003778 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 314260003779 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 314260003780 active site 314260003781 phosphorylation site [posttranslational modification] 314260003782 intermolecular recognition site; other site 314260003783 dimerization interface [polypeptide binding]; other site 314260003784 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314260003785 DNA binding residues [nucleotide binding] 314260003786 dimerization interface [polypeptide binding]; other site 314260003787 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 314260003788 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 314260003789 ligand binding site [chemical binding]; other site 314260003790 flexible hinge region; other site 314260003791 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 314260003792 putative switch regulator; other site 314260003793 non-specific DNA interactions [nucleotide binding]; other site 314260003794 DNA binding site [nucleotide binding] 314260003795 sequence specific DNA binding site [nucleotide binding]; other site 314260003796 putative cAMP binding site [chemical binding]; other site 314260003797 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 314260003798 Ligand Binding Site [chemical binding]; other site 314260003799 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 314260003800 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 314260003801 NADP-binding site; other site 314260003802 homotetramer interface [polypeptide binding]; other site 314260003803 substrate binding site [chemical binding]; other site 314260003804 homodimer interface [polypeptide binding]; other site 314260003805 active site 314260003806 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 314260003807 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 314260003808 NADP binding site [chemical binding]; other site 314260003809 active site 314260003810 putative substrate binding site [chemical binding]; other site 314260003811 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 314260003812 TPR repeat; Region: TPR_11; pfam13414 314260003813 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 314260003814 TPR motif; other site 314260003815 binding surface 314260003816 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 314260003817 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 314260003818 TPR motif; other site 314260003819 binding surface 314260003820 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 314260003821 TPR motif; other site 314260003822 binding surface 314260003823 Sulfatase; Region: Sulfatase; cl17466 314260003824 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314260003825 methyltransferase, FxLD system; Region: methyltran_FxLD; TIGR04364 314260003826 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 314260003827 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314260003828 acyl-activating enzyme (AAE) consensus motif; other site 314260003829 AMP binding site [chemical binding]; other site 314260003830 active site 314260003831 CoA binding site [chemical binding]; other site 314260003832 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 314260003833 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 314260003834 FMN binding site [chemical binding]; other site 314260003835 substrate binding site [chemical binding]; other site 314260003836 putative catalytic residue [active] 314260003837 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 314260003838 2-Nitropropane dioxygenase (NPD)-like domain, associated with polyketide synthases (PKS). NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and...; Region: NPD_PKS; cd04743 314260003839 FMN binding site [chemical binding]; other site 314260003840 substrate binding site [chemical binding]; other site 314260003841 putative catalytic residue [active] 314260003842 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 314260003843 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 314260003844 active site 314260003845 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314260003846 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 314260003847 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 314260003848 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 314260003849 putative NADP binding site [chemical binding]; other site 314260003850 active site 314260003851 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 314260003852 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 314260003853 active site 314260003854 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314260003855 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314260003856 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 314260003857 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260003858 Phosphopantetheine attachment site; Region: PP-binding; cl09936 314260003859 Uncharacterized conserved protein [Function unknown]; Region: COG3379 314260003860 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 314260003861 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 314260003862 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314260003863 HlyD family secretion protein; Region: HlyD; pfam00529 314260003864 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314260003865 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260003866 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314260003867 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 314260003868 active site 314260003869 phosphorylation site [posttranslational modification] 314260003870 intermolecular recognition site; other site 314260003871 dimerization interface [polypeptide binding]; other site 314260003872 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 314260003873 dimer interface [polypeptide binding]; other site 314260003874 phosphorylation site [posttranslational modification] 314260003875 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 314260003876 ATP binding site [chemical binding]; other site 314260003877 Mg2+ binding site [ion binding]; other site 314260003878 G-X-G motif; other site 314260003879 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 314260003880 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 314260003881 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 314260003882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260003883 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 314260003884 ATP binding site [chemical binding]; other site 314260003885 Mg2+ binding site [ion binding]; other site 314260003886 G-X-G motif; other site 314260003887 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314260003888 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 314260003889 active site 314260003890 phosphorylation site [posttranslational modification] 314260003891 intermolecular recognition site; other site 314260003892 dimerization interface [polypeptide binding]; other site 314260003893 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314260003894 DNA binding residues [nucleotide binding] 314260003895 dimerization interface [polypeptide binding]; other site 314260003896 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 314260003897 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260003898 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 314260003899 active site 314260003900 phosphorylation site [posttranslational modification] 314260003901 intermolecular recognition site; other site 314260003902 dimerization interface [polypeptide binding]; other site 314260003903 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 314260003904 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 314260003905 active site 314260003906 phosphorylation site [posttranslational modification] 314260003907 intermolecular recognition site; other site 314260003908 dimerization interface [polypeptide binding]; other site 314260003909 CheB methylesterase; Region: CheB_methylest; pfam01339 314260003910 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 314260003911 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 314260003912 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 314260003913 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 314260003914 ATP binding site [chemical binding]; other site 314260003915 Mg2+ binding site [ion binding]; other site 314260003916 G-X-G motif; other site 314260003917 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 314260003918 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 314260003919 putative CheA interaction surface; other site 314260003920 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 314260003921 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 314260003922 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 314260003923 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 314260003924 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 314260003925 active site 314260003926 phosphorylation site [posttranslational modification] 314260003927 intermolecular recognition site; other site 314260003928 dimerization interface [polypeptide binding]; other site 314260003929 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314260003930 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 314260003931 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314260003932 MarR family; Region: MarR; pfam01047 314260003933 BCCT family transporter; Region: BCCT; pfam02028 314260003934 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 314260003935 TPR motif; other site 314260003936 TPR repeat; Region: TPR_11; pfam13414 314260003937 binding surface 314260003938 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 314260003939 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314260003940 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314260003941 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260003942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4337 314260003943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 314260003944 Histidine kinase; Region: HisKA_3; pfam07730 314260003945 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 314260003946 ATP binding site [chemical binding]; other site 314260003947 Mg2+ binding site [ion binding]; other site 314260003948 G-X-G motif; other site 314260003949 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314260003950 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 314260003951 active site 314260003952 phosphorylation site [posttranslational modification] 314260003953 intermolecular recognition site; other site 314260003954 dimerization interface [polypeptide binding]; other site 314260003955 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314260003956 DNA binding residues [nucleotide binding] 314260003957 dimerization interface [polypeptide binding]; other site 314260003958 CHASE3 domain; Region: CHASE3; pfam05227 314260003959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 314260003960 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 314260003961 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260003962 putative active site [active] 314260003963 heme pocket [chemical binding]; other site 314260003964 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 314260003965 dimer interface [polypeptide binding]; other site 314260003966 phosphorylation site [posttranslational modification] 314260003967 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 314260003968 ATP binding site [chemical binding]; other site 314260003969 Mg2+ binding site [ion binding]; other site 314260003970 G-X-G motif; other site 314260003971 Response regulator receiver domain; Region: Response_reg; pfam00072 314260003972 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 314260003973 active site 314260003974 phosphorylation site [posttranslational modification] 314260003975 intermolecular recognition site; other site 314260003976 dimerization interface [polypeptide binding]; other site 314260003977 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 314260003978 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 314260003979 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 314260003980 Family of unknown function (DUF694); Region: DUF694; pfam05107 314260003981 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 314260003982 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 314260003983 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 314260003984 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 314260003985 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 314260003986 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 314260003987 hypothetical protein; Validated; Region: PRK00110 314260003988 elongation factor P; Validated; Region: PRK00529 314260003989 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 314260003990 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 314260003991 RNA binding site [nucleotide binding]; other site 314260003992 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 314260003993 RNA binding site [nucleotide binding]; other site 314260003994 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 314260003995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314260003996 metal binding site [ion binding]; metal-binding site 314260003997 active site 314260003998 I-site; other site 314260003999 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 314260004000 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 314260004001 Putative Catalytic site; other site 314260004002 DXD motif; other site 314260004003 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 314260004004 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 314260004005 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 314260004006 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 314260004007 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 314260004008 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 314260004009 Ligand binding site; other site 314260004010 oligomer interface; other site 314260004011 Predicted integral membrane protein [Function unknown]; Region: COG5652 314260004012 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 314260004013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260004014 NAD(P) binding site [chemical binding]; other site 314260004015 active site 314260004016 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260004017 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 314260004018 active site 314260004019 metal binding site [ion binding]; metal-binding site 314260004020 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314260004021 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314260004022 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 314260004023 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 314260004024 FAD binding site [chemical binding]; other site 314260004025 substrate binding site [chemical binding]; other site 314260004026 catalytic residues [active] 314260004027 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314260004028 putative outer membrane lipoprotein; Provisional; Region: PRK10510 314260004029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314260004030 ligand binding site [chemical binding]; other site 314260004031 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 314260004032 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 314260004033 RNA binding surface [nucleotide binding]; other site 314260004034 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 314260004035 active site 314260004036 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 314260004037 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 314260004038 S-adenosylmethionine binding site [chemical binding]; other site 314260004039 Protein of unknown function (DUF938); Region: DUF938; pfam06080 314260004040 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 314260004041 Radical SAM superfamily; Region: Radical_SAM; pfam04055 314260004042 FeS/SAM binding site; other site 314260004043 CHAD domain; Region: CHAD; pfam05235 314260004044 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 314260004045 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 314260004046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260004047 homodimer interface [polypeptide binding]; other site 314260004048 catalytic residue [active] 314260004049 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 314260004050 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 314260004051 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 314260004052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 314260004053 ligand binding site [chemical binding]; other site 314260004054 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 314260004055 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314260004056 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 314260004057 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314260004058 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 314260004059 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 314260004060 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 314260004061 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 314260004062 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 314260004063 FliG C-terminal domain; Region: FliG_C; pfam01706 314260004064 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 314260004065 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 314260004066 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 314260004067 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 314260004068 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 314260004069 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 314260004070 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 314260004071 flagellar motor protein MotA; Validated; Region: PRK09110 314260004072 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 314260004073 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314260004074 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 314260004075 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 314260004076 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314260004077 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314260004078 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 314260004079 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 314260004080 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 314260004081 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 314260004082 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 314260004083 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 314260004084 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 314260004085 Rod binding protein; Region: Rod-binding; cl01626 314260004086 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 314260004087 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 314260004088 Flagellar protein FlaF; Region: FlaF; pfam07309 314260004089 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 314260004090 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 314260004091 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 314260004092 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 314260004093 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 314260004094 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 314260004095 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 314260004096 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 314260004097 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 314260004098 FHIPEP family; Region: FHIPEP; pfam00771 314260004099 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 314260004100 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 314260004101 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 314260004102 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 314260004103 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 314260004104 homodimer interface [polypeptide binding]; other site 314260004105 substrate-cofactor binding pocket; other site 314260004106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260004107 catalytic residue [active] 314260004108 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 314260004109 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314260004110 HIGH motif; other site 314260004111 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 314260004112 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 314260004113 active site 314260004114 KMSKS motif; other site 314260004115 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 314260004116 tRNA binding surface [nucleotide binding]; other site 314260004117 anticodon binding site; other site 314260004118 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 314260004119 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 314260004120 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 314260004121 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314260004122 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 314260004123 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 314260004124 cleavage site 314260004125 Protein of unknown function (DUF461); Region: DUF461; pfam04314 314260004126 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 314260004127 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 314260004128 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 314260004129 ligand binding site [chemical binding]; other site 314260004130 active site 314260004131 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260004132 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 314260004133 putative active site [active] 314260004134 heme pocket [chemical binding]; other site 314260004135 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 314260004136 dimer interface [polypeptide binding]; other site 314260004137 phosphorylation site [posttranslational modification] 314260004138 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 314260004139 ATP binding site [chemical binding]; other site 314260004140 Mg2+ binding site [ion binding]; other site 314260004141 G-X-G motif; other site 314260004142 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 314260004143 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 314260004144 Transglycosylase; Region: Transgly; pfam00912 314260004145 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 314260004146 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314260004147 hypothetical protein; Provisional; Region: PRK05170 314260004148 Uncharacterized conserved protein [Function unknown]; Region: COG5323 314260004149 Terminase-like family; Region: Terminase_6; pfam03237 314260004150 Phage-related protein [Function unknown]; Region: COG4695 314260004151 Phage portal protein; Region: Phage_portal; pfam04860 314260004152 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 314260004153 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 314260004154 Phage capsid family; Region: Phage_capsid; pfam05065 314260004155 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 314260004156 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 314260004157 oligomerization interface [polypeptide binding]; other site 314260004158 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 314260004159 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 314260004160 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 314260004161 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 314260004162 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 314260004163 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 314260004164 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 314260004165 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 314260004166 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 314260004167 NlpC/P60 family; Region: NLPC_P60; cl17555 314260004168 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 314260004169 Putative phage tail protein; Region: Phage-tail_3; pfam13550 314260004170 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 314260004171 chaperone protein DnaJ; Provisional; Region: PRK14299 314260004172 HSP70 interaction site [polypeptide binding]; other site 314260004173 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 314260004174 substrate binding site [polypeptide binding]; other site 314260004175 dimer interface [polypeptide binding]; other site 314260004176 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 314260004177 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314260004178 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260004179 protein binding site [polypeptide binding]; other site 314260004180 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260004181 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260004182 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 314260004183 active site 314260004184 phosphorylation site [posttranslational modification] 314260004185 intermolecular recognition site; other site 314260004186 dimerization interface [polypeptide binding]; other site 314260004187 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 314260004188 DNA binding site [nucleotide binding] 314260004189 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 314260004190 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314260004191 dimerization interface [polypeptide binding]; other site 314260004192 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 314260004193 dimer interface [polypeptide binding]; other site 314260004194 phosphorylation site [posttranslational modification] 314260004195 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 314260004196 ATP binding site [chemical binding]; other site 314260004197 Mg2+ binding site [ion binding]; other site 314260004198 G-X-G motif; other site 314260004199 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 314260004200 IHF dimer interface [polypeptide binding]; other site 314260004201 IHF - DNA interface [nucleotide binding]; other site 314260004202 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 314260004203 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314260004204 metal binding triad; other site 314260004205 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 314260004206 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 314260004207 metal binding triad; other site 314260004208 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 314260004209 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 314260004210 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 314260004211 dimer interface [polypeptide binding]; other site 314260004212 phosphorylation site [posttranslational modification] 314260004213 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 314260004214 ATP binding site [chemical binding]; other site 314260004215 Mg2+ binding site [ion binding]; other site 314260004216 G-X-G motif; other site 314260004217 PhoD-like phosphatase; Region: PhoD; pfam09423 314260004218 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314260004219 putative active site [active] 314260004220 putative metal binding site [ion binding]; other site 314260004221 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 314260004222 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 314260004223 active site 314260004224 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 314260004225 dimer interface [polypeptide binding]; other site 314260004226 catalytic residues [active] 314260004227 substrate binding site [chemical binding]; other site 314260004228 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 314260004229 spermidine synthase; Provisional; Region: PRK00811 314260004230 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 314260004231 S-adenosylmethionine binding site [chemical binding]; other site 314260004232 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 314260004233 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 314260004234 folate binding site [chemical binding]; other site 314260004235 NADP+ binding site [chemical binding]; other site 314260004236 thymidylate synthase; Reviewed; Region: thyA; PRK01827 314260004237 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 314260004238 dimerization interface [polypeptide binding]; other site 314260004239 active site 314260004240 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260004241 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 314260004242 non-specific DNA binding site [nucleotide binding]; other site 314260004243 salt bridge; other site 314260004244 sequence-specific DNA binding site [nucleotide binding]; other site 314260004245 Cytochrome c2 [Energy production and conversion]; Region: COG3474 314260004246 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260004247 tellurium resistance terB-like protein; Region: terB_like; cl11965 314260004248 metal binding site [ion binding]; metal-binding site 314260004249 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 314260004250 active site 314260004251 oligomerization interface [polypeptide binding]; other site 314260004252 metal binding site [ion binding]; metal-binding site 314260004253 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 314260004254 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260004255 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 314260004256 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 314260004257 putative coenzyme Q binding site [chemical binding]; other site 314260004258 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 314260004259 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 314260004260 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 314260004261 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 314260004262 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 314260004263 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 314260004264 active site 314260004265 Zn binding site [ion binding]; other site 314260004266 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 314260004267 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 314260004268 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 314260004269 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 314260004270 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314260004271 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314260004272 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 314260004273 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314260004274 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314260004275 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 314260004276 IMP binding site; other site 314260004277 dimer interface [polypeptide binding]; other site 314260004278 partial ornithine binding site; other site 314260004279 Predicted acetyltransferase [General function prediction only]; Region: COG2388 314260004280 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314260004281 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 314260004282 putative DNA binding site [nucleotide binding]; other site 314260004283 putative Zn2+ binding site [ion binding]; other site 314260004284 AsnC family; Region: AsnC_trans_reg; pfam01037 314260004285 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 314260004286 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 314260004287 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260004288 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 314260004289 putative C-terminal domain interface [polypeptide binding]; other site 314260004290 putative GSH binding site (G-site) [chemical binding]; other site 314260004291 putative dimer interface [polypeptide binding]; other site 314260004292 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 314260004293 putative N-terminal domain interface [polypeptide binding]; other site 314260004294 putative dimer interface [polypeptide binding]; other site 314260004295 putative substrate binding pocket (H-site) [chemical binding]; other site 314260004296 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 314260004297 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 314260004298 Cl- selectivity filter; other site 314260004299 Cl- binding residues [ion binding]; other site 314260004300 pore gating glutamate residue; other site 314260004301 dimer interface [polypeptide binding]; other site 314260004302 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; cd02205 314260004303 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 314260004304 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 314260004305 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 314260004306 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 314260004307 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 314260004308 Walker A motif; other site 314260004309 ATP binding site [chemical binding]; other site 314260004310 Walker B motif; other site 314260004311 arginine finger; other site 314260004312 Peptidase family M41; Region: Peptidase_M41; pfam01434 314260004313 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 314260004314 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 314260004315 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 314260004316 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 314260004317 active site 314260004318 cosubstrate binding site; other site 314260004319 catalytic site [active] 314260004320 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 314260004321 dihydropteroate synthase; Region: DHPS; TIGR01496 314260004322 substrate binding pocket [chemical binding]; other site 314260004323 dimer interface [polypeptide binding]; other site 314260004324 inhibitor binding site; inhibition site 314260004325 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 314260004326 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 314260004327 active site 314260004328 substrate binding site [chemical binding]; other site 314260004329 metal binding site [ion binding]; metal-binding site 314260004330 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 314260004331 dimer interface [polypeptide binding]; other site 314260004332 substrate binding site [chemical binding]; other site 314260004333 ATP binding site [chemical binding]; other site 314260004334 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 314260004335 Fe-S cluster binding site [ion binding]; other site 314260004336 DNA binding site [nucleotide binding] 314260004337 active site 314260004338 Uncharacterized conserved protein [Function unknown]; Region: COG1432 314260004339 LabA_like proteins; Region: LabA; cd10911 314260004340 putative metal binding site [ion binding]; other site 314260004341 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 314260004342 catalytic center binding site [active] 314260004343 ATP binding site [chemical binding]; other site 314260004344 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 314260004345 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 314260004346 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 314260004347 Zn2+ binding site [ion binding]; other site 314260004348 Mg2+ binding site [ion binding]; other site 314260004349 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 314260004350 synthetase active site [active] 314260004351 NTP binding site [chemical binding]; other site 314260004352 metal binding site [ion binding]; metal-binding site 314260004353 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 314260004354 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 314260004355 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260004356 active site 314260004357 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 314260004358 active site 314260004359 hydrophilic channel; other site 314260004360 dimerization interface [polypeptide binding]; other site 314260004361 catalytic residues [active] 314260004362 active site lid [active] 314260004363 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 314260004364 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 314260004365 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 314260004366 Catalytic site [active] 314260004367 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 314260004368 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 314260004369 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 314260004370 dimerization interface [polypeptide binding]; other site 314260004371 active site 314260004372 metal binding site [ion binding]; metal-binding site 314260004373 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 314260004374 dsRNA binding site [nucleotide binding]; other site 314260004375 GTPase Era; Reviewed; Region: era; PRK00089 314260004376 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 314260004377 G1 box; other site 314260004378 GTP/Mg2+ binding site [chemical binding]; other site 314260004379 Switch I region; other site 314260004380 G2 box; other site 314260004381 Switch II region; other site 314260004382 G3 box; other site 314260004383 G4 box; other site 314260004384 G5 box; other site 314260004385 KH domain; Region: KH_2; pfam07650 314260004386 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 314260004387 Recombination protein O N terminal; Region: RecO_N; pfam11967 314260004388 Recombination protein O C terminal; Region: RecO_C; pfam02565 314260004389 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 314260004390 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 314260004391 GIY-YIG motif/motif A; other site 314260004392 active site 314260004393 catalytic site [active] 314260004394 putative DNA binding site [nucleotide binding]; other site 314260004395 metal binding site [ion binding]; metal-binding site 314260004396 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 314260004397 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314260004398 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314260004399 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314260004400 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 314260004401 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 314260004402 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 314260004403 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 314260004404 TSCPD domain; Region: TSCPD; pfam12637 314260004405 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 314260004406 DNA-binding site [nucleotide binding]; DNA binding site 314260004407 RNA-binding motif; other site 314260004408 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 314260004409 DNA-binding site [nucleotide binding]; DNA binding site 314260004410 RNA-binding motif; other site 314260004411 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 314260004412 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 314260004413 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 314260004414 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314260004415 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 314260004416 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 314260004417 putative active site [active] 314260004418 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 314260004419 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314260004420 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260004421 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260004422 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 314260004423 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 314260004424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260004425 homodimer interface [polypeptide binding]; other site 314260004426 catalytic residue [active] 314260004427 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314260004428 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314260004429 GAF domain; Region: GAF; pfam01590 314260004430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 314260004431 HWE histidine kinase; Region: HWE_HK; smart00911 314260004432 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 314260004433 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 314260004434 NAD(P) binding site [chemical binding]; other site 314260004435 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 314260004436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260004437 putative substrate translocation pore; other site 314260004438 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 314260004439 Found in ATP-dependent protease La (LON); Region: LON; smart00464 314260004440 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 314260004441 Walker A motif; other site 314260004442 ATP binding site [chemical binding]; other site 314260004443 Walker B motif; other site 314260004444 arginine finger; other site 314260004445 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 314260004446 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 314260004447 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314260004448 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 314260004449 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 314260004450 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 314260004451 dimer interface [polypeptide binding]; other site 314260004452 anticodon binding site; other site 314260004453 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 314260004454 motif 1; other site 314260004455 dimer interface [polypeptide binding]; other site 314260004456 active site 314260004457 motif 2; other site 314260004458 GAD domain; Region: GAD; pfam02938 314260004459 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 314260004460 active site 314260004461 motif 3; other site 314260004462 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260004463 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260004464 Dienelactone hydrolase family; Region: DLH; pfam01738 314260004465 cell division protein FtsZ; Validated; Region: PRK09330 314260004466 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 314260004467 nucleotide binding site [chemical binding]; other site 314260004468 SulA interaction site; other site 314260004469 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 314260004470 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260004471 N-terminal plug; other site 314260004472 ligand-binding site [chemical binding]; other site 314260004473 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 314260004474 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260004475 putative C-terminal domain interface [polypeptide binding]; other site 314260004476 putative GSH binding site (G-site) [chemical binding]; other site 314260004477 putative dimer interface [polypeptide binding]; other site 314260004478 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 314260004479 putative substrate binding pocket (H-site) [chemical binding]; other site 314260004480 putative N-terminal domain interface [polypeptide binding]; other site 314260004481 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 314260004482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314260004483 active site 314260004484 dimer interface [polypeptide binding]; other site 314260004485 glutathione reductase; Validated; Region: PRK06116 314260004486 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 314260004487 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260004488 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260004489 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 314260004490 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 314260004491 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 314260004492 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260004493 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260004494 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 314260004495 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 314260004496 type II secretion system protein D; Region: type_II_gspD; TIGR02517 314260004497 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314260004498 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 314260004499 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 314260004500 type II secretion system protein E; Region: type_II_gspE; TIGR02533 314260004501 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 314260004502 Walker A motif; other site 314260004503 ATP binding site [chemical binding]; other site 314260004504 Walker B motif; other site 314260004505 type II secretion system protein F; Region: GspF; TIGR02120 314260004506 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314260004507 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 314260004508 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 314260004509 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 314260004510 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 314260004511 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 314260004512 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 314260004513 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 314260004514 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 314260004515 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 314260004516 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 314260004517 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 314260004518 GspL periplasmic domain; Region: GspL_C; pfam12693 314260004519 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 314260004520 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 314260004521 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314260004522 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 314260004523 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314260004524 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 314260004525 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 314260004526 active site 314260004527 intersubunit interactions; other site 314260004528 catalytic residue [active] 314260004529 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 314260004530 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 314260004531 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260004532 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260004533 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 314260004534 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 314260004535 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 314260004536 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 314260004537 active site 314260004538 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 314260004539 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314260004540 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314260004541 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 314260004542 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 314260004543 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260004544 active site 314260004545 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 314260004546 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 314260004547 Uncharacterized conserved protein [Function unknown]; Region: COG1565 314260004548 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 314260004549 Membrane fusogenic activity; Region: BMFP; pfam04380 314260004550 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 314260004551 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 314260004552 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 314260004553 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 314260004554 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 314260004555 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 314260004556 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 314260004557 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 314260004558 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 314260004559 TPP-binding site; other site 314260004560 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 314260004561 PYR/PP interface [polypeptide binding]; other site 314260004562 dimer interface [polypeptide binding]; other site 314260004563 TPP binding site [chemical binding]; other site 314260004564 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314260004565 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 314260004566 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 314260004567 RNA binding surface [nucleotide binding]; other site 314260004568 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 314260004569 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 314260004570 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 314260004571 S-adenosylmethionine binding site [chemical binding]; other site 314260004572 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314260004573 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 314260004574 S-adenosylmethionine binding site [chemical binding]; other site 314260004575 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 314260004576 CoenzymeA binding site [chemical binding]; other site 314260004577 subunit interaction site [polypeptide binding]; other site 314260004578 PHB binding site; other site 314260004579 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 314260004580 CoenzymeA binding site [chemical binding]; other site 314260004581 subunit interaction site [polypeptide binding]; other site 314260004582 PHB binding site; other site 314260004583 Chorismate mutase type II; Region: CM_2; smart00830 314260004584 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 314260004585 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260004586 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 314260004587 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 314260004588 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 314260004589 active site 314260004590 substrate binding site [chemical binding]; other site 314260004591 cosubstrate binding site; other site 314260004592 catalytic site [active] 314260004593 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 314260004594 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 314260004595 dimerization interface [polypeptide binding]; other site 314260004596 putative ATP binding site [chemical binding]; other site 314260004597 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 314260004598 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314260004599 polyphosphate kinase; Provisional; Region: PRK05443 314260004600 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 314260004601 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 314260004602 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 314260004603 putative domain interface [polypeptide binding]; other site 314260004604 putative active site [active] 314260004605 catalytic site [active] 314260004606 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 314260004607 putative domain interface [polypeptide binding]; other site 314260004608 putative active site [active] 314260004609 catalytic site [active] 314260004610 exopolyphosphatase; Region: exo_poly_only; TIGR03706 314260004611 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 314260004612 ribonuclease D; Region: rnd; TIGR01388 314260004613 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 314260004614 catalytic site [active] 314260004615 putative active site [active] 314260004616 putative substrate binding site [chemical binding]; other site 314260004617 HRDC domain; Region: HRDC; pfam00570 314260004618 PhoD-like phosphatase; Region: PhoD; pfam09423 314260004619 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314260004620 putative active site [active] 314260004621 putative metal binding site [ion binding]; other site 314260004622 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 314260004623 short chain dehydrogenase; Provisional; Region: PRK07576 314260004624 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 314260004625 NAD(P) binding site [chemical binding]; other site 314260004626 substrate binding site [chemical binding]; other site 314260004627 homotetramer interface [polypeptide binding]; other site 314260004628 active site 314260004629 homodimer interface [polypeptide binding]; other site 314260004630 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 314260004631 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 314260004632 E3 interaction surface; other site 314260004633 lipoyl attachment site [posttranslational modification]; other site 314260004634 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 314260004635 alpha subunit interface [polypeptide binding]; other site 314260004636 TPP binding site [chemical binding]; other site 314260004637 heterodimer interface [polypeptide binding]; other site 314260004638 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 314260004639 Protein of unknown function (DUF805); Region: DUF805; pfam05656 314260004640 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 314260004641 Protein of unknown function (DUF805); Region: DUF805; cl01224 314260004642 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 314260004643 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 314260004644 E3 interaction surface; other site 314260004645 lipoyl attachment site [posttranslational modification]; other site 314260004646 e3 binding domain; Region: E3_binding; pfam02817 314260004647 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314260004648 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 314260004649 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260004650 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260004651 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 314260004652 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 314260004653 tetramer interface [polypeptide binding]; other site 314260004654 TPP-binding site [chemical binding]; other site 314260004655 heterodimer interface [polypeptide binding]; other site 314260004656 phosphorylation loop region [posttranslational modification] 314260004657 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 314260004658 dimerization interface [polypeptide binding]; other site 314260004659 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260004660 PAS domain; Region: PAS_9; pfam13426 314260004661 putative active site [active] 314260004662 heme pocket [chemical binding]; other site 314260004663 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 314260004664 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 314260004665 dimer interface [polypeptide binding]; other site 314260004666 putative CheW interface [polypeptide binding]; other site 314260004667 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 314260004668 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 314260004669 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 314260004670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260004671 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260004672 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 314260004673 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 314260004674 HIT family signature motif; other site 314260004675 catalytic residue [active] 314260004676 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 314260004677 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 314260004678 putative substrate translocation pore; other site 314260004679 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 314260004680 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314260004681 active site 314260004682 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260004683 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 314260004684 sequence-specific DNA binding site [nucleotide binding]; other site 314260004685 salt bridge; other site 314260004686 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 314260004687 Organic solvent tolerance protein; Region: OstA_C; pfam04453 314260004688 Predicted permeases [General function prediction only]; Region: COG0795 314260004689 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314260004690 Predicted permeases [General function prediction only]; Region: COG0795 314260004691 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 314260004692 multifunctional aminopeptidase A; Provisional; Region: PRK00913 314260004693 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 314260004694 interface (dimer of trimers) [polypeptide binding]; other site 314260004695 Substrate-binding/catalytic site; other site 314260004696 Zn-binding sites [ion binding]; other site 314260004697 YceI-like domain; Region: YceI; pfam04264 314260004698 YceI-like domain; Region: YceI; cl01001 314260004699 Glucokinase; Region: Glucokinase; cl17310 314260004700 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 314260004701 Family description; Region: UvrD_C_2; pfam13538 314260004702 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 314260004703 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 314260004704 putative active site [active] 314260004705 putative PHP Thumb interface [polypeptide binding]; other site 314260004706 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 314260004707 generic binding surface I; other site 314260004708 generic binding surface II; other site 314260004709 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 314260004710 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 314260004711 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 314260004712 putative homodimer interface [polypeptide binding]; other site 314260004713 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 314260004714 heterodimer interface [polypeptide binding]; other site 314260004715 homodimer interface [polypeptide binding]; other site 314260004716 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260004717 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 314260004718 active site 314260004719 phosphorylation site [posttranslational modification] 314260004720 intermolecular recognition site; other site 314260004721 dimerization interface [polypeptide binding]; other site 314260004722 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 314260004723 DNA binding site [nucleotide binding] 314260004724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 314260004725 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 314260004726 Stringent starvation protein B; Region: SspB; pfam04386 314260004727 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 314260004728 Walker A motif; other site 314260004729 HflK protein; Region: hflK; TIGR01933 314260004730 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 314260004731 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 314260004732 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 314260004733 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 314260004734 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314260004735 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260004736 protein binding site [polypeptide binding]; other site 314260004737 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260004738 protein binding site [polypeptide binding]; other site 314260004739 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 314260004740 dimerization interface [polypeptide binding]; other site 314260004741 ATP binding site [chemical binding]; other site 314260004742 thiamine-monophosphate kinase; Region: thiL; TIGR01379 314260004743 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 314260004744 dimerization interface [polypeptide binding]; other site 314260004745 ATP binding site [chemical binding]; other site 314260004746 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 314260004747 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 314260004748 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 314260004749 putative active site [active] 314260004750 catalytic triad [active] 314260004751 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 314260004752 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 314260004753 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 314260004754 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 314260004755 putative substrate translocation pore; other site 314260004756 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260004757 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 314260004758 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 314260004759 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 314260004760 FAD binding pocket [chemical binding]; other site 314260004761 FAD binding motif [chemical binding]; other site 314260004762 phosphate binding motif [ion binding]; other site 314260004763 beta-alpha-beta structure motif; other site 314260004764 NAD binding pocket [chemical binding]; other site 314260004765 Methyltransferase domain; Region: Methyltransf_31; pfam13847 314260004766 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 314260004767 S-adenosylmethionine binding site [chemical binding]; other site 314260004768 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 314260004769 tetramerization interface [polypeptide binding]; other site 314260004770 active site 314260004771 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314260004772 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 314260004773 PA/protease or protease-like domain interface [polypeptide binding]; other site 314260004774 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 314260004775 Peptidase family M28; Region: Peptidase_M28; pfam04389 314260004776 metal binding site [ion binding]; metal-binding site 314260004777 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 314260004778 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314260004779 Walker A/P-loop; other site 314260004780 ATP binding site [chemical binding]; other site 314260004781 Q-loop/lid; other site 314260004782 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 314260004783 ABC transporter signature motif; other site 314260004784 Walker B; other site 314260004785 D-loop; other site 314260004786 H-loop/switch region; other site 314260004787 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 314260004788 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 314260004789 nucleotide binding pocket [chemical binding]; other site 314260004790 K-X-D-G motif; other site 314260004791 catalytic site [active] 314260004792 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 314260004793 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 314260004794 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 314260004795 Dimer interface [polypeptide binding]; other site 314260004796 BRCT sequence motif; other site 314260004797 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 314260004798 classical (c) SDRs; Region: SDR_c; cd05233 314260004799 NAD(P) binding site [chemical binding]; other site 314260004800 active site 314260004801 acetyl-CoA synthetase; Provisional; Region: PRK00174 314260004802 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 314260004803 active site 314260004804 CoA binding site [chemical binding]; other site 314260004805 acyl-activating enzyme (AAE) consensus motif; other site 314260004806 AMP binding site [chemical binding]; other site 314260004807 acetate binding site [chemical binding]; other site 314260004808 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 314260004809 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 314260004810 putative DNA binding site [nucleotide binding]; other site 314260004811 dimerization interface [polypeptide binding]; other site 314260004812 putative Zn2+ binding site [ion binding]; other site 314260004813 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 314260004814 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314260004815 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 314260004816 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 314260004817 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 314260004818 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 314260004819 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 314260004820 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 314260004821 Na binding site [ion binding]; other site 314260004822 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 314260004823 PAS domain; Region: PAS; smart00091 314260004824 PAS fold; Region: PAS_7; pfam12860 314260004825 putative active site [active] 314260004826 heme pocket [chemical binding]; other site 314260004827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260004828 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 314260004829 dimer interface [polypeptide binding]; other site 314260004830 phosphorylation site [posttranslational modification] 314260004831 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 314260004832 ATP binding site [chemical binding]; other site 314260004833 Mg2+ binding site [ion binding]; other site 314260004834 G-X-G motif; other site 314260004835 Response regulator receiver domain; Region: Response_reg; pfam00072 314260004836 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 314260004837 active site 314260004838 phosphorylation site [posttranslational modification] 314260004839 intermolecular recognition site; other site 314260004840 dimerization interface [polypeptide binding]; other site 314260004841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 314260004842 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 314260004843 active site 314260004844 phosphorylation site [posttranslational modification] 314260004845 intermolecular recognition site; other site 314260004846 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 314260004847 DNA binding residues [nucleotide binding] 314260004848 dimerization interface [polypeptide binding]; other site 314260004849 acetyl-CoA synthetase; Provisional; Region: PRK00174 314260004850 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 314260004851 active site 314260004852 CoA binding site [chemical binding]; other site 314260004853 acyl-activating enzyme (AAE) consensus motif; other site 314260004854 AMP binding site [chemical binding]; other site 314260004855 acetate binding site [chemical binding]; other site 314260004856 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 314260004857 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314260004858 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 314260004859 Fatty acid desaturase; Region: FA_desaturase; pfam00487 314260004860 Di-iron ligands [ion binding]; other site 314260004861 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 314260004862 DNA photolyase; Region: DNA_photolyase; pfam00875 314260004863 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 314260004864 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 314260004865 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 314260004866 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 314260004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 314260004868 Uncharacterized conserved protein [Function unknown]; Region: COG2308 314260004869 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 314260004870 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 314260004871 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 314260004872 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 314260004873 Response regulator receiver domain; Region: Response_reg; pfam00072 314260004874 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 314260004875 active site 314260004876 phosphorylation site [posttranslational modification] 314260004877 intermolecular recognition site; other site 314260004878 dimerization interface [polypeptide binding]; other site 314260004879 GAF domain; Region: GAF; pfam01590 314260004880 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 314260004881 Cupin domain; Region: Cupin_2; pfam07883 314260004882 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 314260004883 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 314260004884 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 314260004885 CAP-like domain; other site 314260004886 active site 314260004887 primary dimer interface [polypeptide binding]; other site 314260004888 EamA-like transporter family; Region: EamA; cl17759 314260004889 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 314260004890 EamA-like transporter family; Region: EamA; pfam00892 314260004891 MarR family; Region: MarR_2; cl17246 314260004892 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 314260004893 MltA-interacting protein MipA; Region: MipA; cl01504 314260004894 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 314260004895 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 314260004896 active site 314260004897 HIGH motif; other site 314260004898 KMSKS motif; other site 314260004899 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 314260004900 tRNA binding surface [nucleotide binding]; other site 314260004901 anticodon binding site; other site 314260004902 GTP-binding protein YchF; Reviewed; Region: PRK09601 314260004903 YchF GTPase; Region: YchF; cd01900 314260004904 G1 box; other site 314260004905 GTP/Mg2+ binding site [chemical binding]; other site 314260004906 Switch I region; other site 314260004907 G2 box; other site 314260004908 Switch II region; other site 314260004909 G3 box; other site 314260004910 G4 box; other site 314260004911 G5 box; other site 314260004912 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 314260004913 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 314260004914 putative active site [active] 314260004915 catalytic residue [active] 314260004916 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 314260004917 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 314260004918 5S rRNA interface [nucleotide binding]; other site 314260004919 CTC domain interface [polypeptide binding]; other site 314260004920 L16 interface [polypeptide binding]; other site 314260004921 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 314260004922 diiron binding motif [ion binding]; other site 314260004923 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 314260004924 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 314260004925 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260004926 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260004927 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 314260004928 Competence-damaged protein; Region: CinA; pfam02464 314260004929 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 314260004930 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 314260004931 substrate binding site; other site 314260004932 dimer interface; other site 314260004933 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 314260004934 homotrimer interaction site [polypeptide binding]; other site 314260004935 zinc binding site [ion binding]; other site 314260004936 CDP-binding sites; other site 314260004937 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 314260004938 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 314260004939 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 314260004940 active site 314260004941 metal binding site [ion binding]; metal-binding site 314260004942 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 314260004943 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 314260004944 23S rRNA interface [nucleotide binding]; other site 314260004945 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 314260004946 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 314260004947 core dimer interface [polypeptide binding]; other site 314260004948 peripheral dimer interface [polypeptide binding]; other site 314260004949 L10 interface [polypeptide binding]; other site 314260004950 L11 interface [polypeptide binding]; other site 314260004951 putative EF-Tu interaction site [polypeptide binding]; other site 314260004952 putative EF-G interaction site [polypeptide binding]; other site 314260004953 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 314260004954 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 314260004955 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314260004956 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 314260004957 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 314260004958 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 314260004959 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 314260004960 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 314260004961 RPB1 interaction site [polypeptide binding]; other site 314260004962 RPB11 interaction site [polypeptide binding]; other site 314260004963 RPB10 interaction site [polypeptide binding]; other site 314260004964 RPB3 interaction site [polypeptide binding]; other site 314260004965 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 314260004966 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 314260004967 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 314260004968 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 314260004969 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 314260004970 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 314260004971 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 314260004972 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 314260004973 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 314260004974 DNA binding site [nucleotide binding] 314260004975 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 314260004976 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 314260004977 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 314260004978 Cupin-like domain; Region: Cupin_8; pfam13621 314260004979 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 314260004980 S17 interaction site [polypeptide binding]; other site 314260004981 S8 interaction site; other site 314260004982 16S rRNA interaction site [nucleotide binding]; other site 314260004983 streptomycin interaction site [chemical binding]; other site 314260004984 23S rRNA interaction site [nucleotide binding]; other site 314260004985 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 314260004986 30S ribosomal protein S7; Validated; Region: PRK05302 314260004987 elongation factor G; Reviewed; Region: PRK00007 314260004988 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 314260004989 G1 box; other site 314260004990 putative GEF interaction site [polypeptide binding]; other site 314260004991 GTP/Mg2+ binding site [chemical binding]; other site 314260004992 Switch I region; other site 314260004993 G2 box; other site 314260004994 G3 box; other site 314260004995 Switch II region; other site 314260004996 G4 box; other site 314260004997 G5 box; other site 314260004998 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 314260004999 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 314260005000 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 314260005001 elongation factor Tu; Reviewed; Region: PRK00049 314260005002 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 314260005003 G1 box; other site 314260005004 GEF interaction site [polypeptide binding]; other site 314260005005 GTP/Mg2+ binding site [chemical binding]; other site 314260005006 Switch I region; other site 314260005007 G2 box; other site 314260005008 G3 box; other site 314260005009 Switch II region; other site 314260005010 G4 box; other site 314260005011 G5 box; other site 314260005012 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 314260005013 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 314260005014 Antibiotic Binding Site [chemical binding]; other site 314260005015 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 314260005016 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 314260005017 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 314260005018 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 314260005019 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 314260005020 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 314260005021 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 314260005022 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 314260005023 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 314260005024 putative translocon binding site; other site 314260005025 protein-rRNA interface [nucleotide binding]; other site 314260005026 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 314260005027 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 314260005028 G-X-X-G motif; other site 314260005029 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 314260005030 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 314260005031 23S rRNA interface [nucleotide binding]; other site 314260005032 5S rRNA interface [nucleotide binding]; other site 314260005033 putative antibiotic binding site [chemical binding]; other site 314260005034 L25 interface [polypeptide binding]; other site 314260005035 L27 interface [polypeptide binding]; other site 314260005036 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 314260005037 L23 interface [polypeptide binding]; other site 314260005038 signal recognition particle (SRP54) interaction site; other site 314260005039 trigger factor interaction site; other site 314260005040 23S rRNA interface [nucleotide binding]; other site 314260005041 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 314260005042 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 314260005043 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 314260005044 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 314260005045 RNA binding site [nucleotide binding]; other site 314260005046 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 314260005047 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 314260005048 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 314260005049 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 314260005050 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 314260005051 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 314260005052 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314260005053 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 314260005054 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 314260005055 5S rRNA interface [nucleotide binding]; other site 314260005056 23S rRNA interface [nucleotide binding]; other site 314260005057 L5 interface [polypeptide binding]; other site 314260005058 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 314260005059 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 314260005060 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 314260005061 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 314260005062 23S rRNA binding site [nucleotide binding]; other site 314260005063 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 314260005064 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 314260005065 SecY translocase; Region: SecY; pfam00344 314260005066 adenylate kinase; Reviewed; Region: adk; PRK00279 314260005067 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 314260005068 AMP-binding site [chemical binding]; other site 314260005069 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 314260005070 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 314260005071 30S ribosomal protein S13; Region: bact_S13; TIGR03631 314260005072 30S ribosomal protein S11; Validated; Region: PRK05309 314260005073 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 314260005074 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 314260005075 alphaNTD - beta interaction site [polypeptide binding]; other site 314260005076 alphaNTD homodimer interface [polypeptide binding]; other site 314260005077 alphaNTD - beta' interaction site [polypeptide binding]; other site 314260005078 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 314260005079 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 314260005080 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 314260005081 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 314260005082 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260005083 protein binding site [polypeptide binding]; other site 314260005084 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 314260005085 protein binding site [polypeptide binding]; other site 314260005086 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 314260005087 recombination factor protein RarA; Reviewed; Region: PRK13342 314260005088 Walker A motif; other site 314260005089 ATP binding site [chemical binding]; other site 314260005090 Walker B motif; other site 314260005091 arginine finger; other site 314260005092 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 314260005093 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 314260005094 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 314260005095 active site 314260005096 DNA binding site [nucleotide binding] 314260005097 Int/Topo IB signature motif; other site 314260005098 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 314260005099 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 314260005100 O-Antigen ligase; Region: Wzy_C; cl04850 314260005101 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314260005102 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 314260005103 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 314260005104 ATP binding site [chemical binding]; other site 314260005105 Mg2+ binding site [ion binding]; other site 314260005106 G-X-G motif; other site 314260005107 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 314260005108 ATP binding site [chemical binding]; other site 314260005109 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 314260005110 Predicted membrane protein [Function unknown]; Region: COG2323 314260005111 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 314260005112 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 314260005113 ATP binding site [chemical binding]; other site 314260005114 Mg2+ binding site [ion binding]; other site 314260005115 G-X-G motif; other site 314260005116 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 314260005117 anchoring element; other site 314260005118 dimer interface [polypeptide binding]; other site 314260005119 ATP binding site [chemical binding]; other site 314260005120 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 314260005121 active site 314260005122 putative metal-binding site [ion binding]; other site 314260005123 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 314260005124 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 314260005125 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 314260005126 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 314260005127 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 314260005128 active site 314260005129 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 314260005130 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314260005131 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005132 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005133 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260005134 short chain dehydrogenase; Provisional; Region: PRK06197 314260005135 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 314260005136 putative NAD(P) binding site [chemical binding]; other site 314260005137 active site 314260005138 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 314260005139 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 314260005140 homodimer interface [polypeptide binding]; other site 314260005141 metal binding site [ion binding]; metal-binding site 314260005142 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 314260005143 homodimer interface [polypeptide binding]; other site 314260005144 active site 314260005145 putative chemical substrate binding site [chemical binding]; other site 314260005146 metal binding site [ion binding]; metal-binding site 314260005147 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 314260005148 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 314260005149 homodimer interface [polypeptide binding]; other site 314260005150 substrate-cofactor binding pocket; other site 314260005151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260005152 catalytic residue [active] 314260005153 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 314260005154 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 314260005155 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314260005156 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005157 cell division protein MraZ; Reviewed; Region: PRK00326 314260005158 MraW methylase family; Region: Methyltransf_5; cl17771 314260005159 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 314260005160 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 314260005161 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 314260005162 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314260005163 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 314260005164 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314260005165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005166 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314260005167 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 314260005168 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314260005169 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005170 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314260005171 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 314260005172 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 314260005173 Mg++ binding site [ion binding]; other site 314260005174 putative catalytic motif [active] 314260005175 putative substrate binding site [chemical binding]; other site 314260005176 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 314260005177 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005178 cell division protein FtsW; Region: ftsW; TIGR02614 314260005179 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 314260005180 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 314260005181 homodimer interface [polypeptide binding]; other site 314260005182 active site 314260005183 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 314260005184 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 314260005185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 314260005187 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 314260005188 FAD binding domain; Region: FAD_binding_4; pfam01565 314260005189 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 314260005190 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 314260005191 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 314260005192 ATP-grasp domain; Region: ATP-grasp_4; cl17255 314260005193 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 314260005194 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 314260005195 Cell division protein FtsQ; Region: FtsQ; pfam03799 314260005196 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 314260005197 putative FMN binding site [chemical binding]; other site 314260005198 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 314260005199 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 314260005200 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 314260005201 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 314260005202 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 314260005203 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 314260005204 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 314260005205 carboxyltransferase (CT) interaction site; other site 314260005206 biotinylation site [posttranslational modification]; other site 314260005207 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 314260005208 thiS-thiF/thiG interaction site; other site 314260005209 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 314260005210 ThiS interaction site; other site 314260005211 putative active site [active] 314260005212 tetramer interface [polypeptide binding]; other site 314260005213 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314260005214 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260005215 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314260005216 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 314260005217 Peptidase family M48; Region: Peptidase_M48; cl12018 314260005218 TPR repeat; Region: TPR_11; pfam13414 314260005219 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 314260005220 TPR motif; other site 314260005221 binding surface 314260005222 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 314260005223 RNA binding site [nucleotide binding]; other site 314260005224 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 314260005225 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 314260005226 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 314260005227 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 314260005228 active site 314260005229 metal binding site [ion binding]; metal-binding site 314260005230 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 314260005231 binding surface 314260005232 TPR motif; other site 314260005233 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 314260005234 TPR repeat; Region: TPR_11; pfam13414 314260005235 binding surface 314260005236 TPR motif; other site 314260005237 TPR repeat; Region: TPR_11; pfam13414 314260005238 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 314260005239 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 314260005240 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 314260005241 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314260005242 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314260005243 substrate binding pocket [chemical binding]; other site 314260005244 chain length determination region; other site 314260005245 substrate-Mg2+ binding site; other site 314260005246 catalytic residues [active] 314260005247 aspartate-rich region 1; other site 314260005248 active site lid residues [active] 314260005249 aspartate-rich region 2; other site 314260005250 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314260005251 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 314260005252 tandem repeat interface [polypeptide binding]; other site 314260005253 oligomer interface [polypeptide binding]; other site 314260005254 active site residues [active] 314260005255 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 314260005256 active site 314260005257 catalytic site [active] 314260005258 substrate binding site [chemical binding]; other site 314260005259 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314260005260 SapC; Region: SapC; pfam07277 314260005261 Homoserine O-succinyltransferase; Region: HTS; pfam04204 314260005262 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 314260005263 proposed active site lysine [active] 314260005264 conserved cys residue [active] 314260005265 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 314260005266 PhoH-like protein; Region: PhoH; pfam02562 314260005267 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 314260005268 YceI-like domain; Region: YceI; pfam04264 314260005269 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 314260005270 Transcriptional regulator; Region: Rrf2; cl17282 314260005271 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 314260005272 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 314260005273 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260005274 catalytic residue [active] 314260005275 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 314260005276 putative ABC transporter; Region: ycf24; CHL00085 314260005277 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 314260005278 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 314260005279 Walker A/P-loop; other site 314260005280 ATP binding site [chemical binding]; other site 314260005281 Q-loop/lid; other site 314260005282 ABC transporter signature motif; other site 314260005283 Walker B; other site 314260005284 D-loop; other site 314260005285 H-loop/switch region; other site 314260005286 FeS assembly protein SufD; Region: sufD; TIGR01981 314260005287 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 314260005288 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 314260005289 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 314260005290 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 314260005291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260005292 catalytic residue [active] 314260005293 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 314260005294 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 314260005295 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 314260005296 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 314260005297 trimer interface [polypeptide binding]; other site 314260005298 active site 314260005299 substrate binding site [chemical binding]; other site 314260005300 CoA binding site [chemical binding]; other site 314260005301 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 314260005302 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 314260005303 motif 1; other site 314260005304 active site 314260005305 motif 2; other site 314260005306 motif 3; other site 314260005307 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 314260005308 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 314260005309 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 314260005310 active site 314260005311 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 314260005312 catalytic triad [active] 314260005313 dimer interface [polypeptide binding]; other site 314260005314 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 314260005315 putative active site [active] 314260005316 putative substrate binding site [chemical binding]; other site 314260005317 ATP binding site [chemical binding]; other site 314260005318 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 314260005319 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 314260005320 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 314260005321 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 314260005322 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 314260005323 23S rRNA interface [nucleotide binding]; other site 314260005324 L7/L12 interface [polypeptide binding]; other site 314260005325 putative thiostrepton binding site; other site 314260005326 L25 interface [polypeptide binding]; other site 314260005327 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 314260005328 mRNA/rRNA interface [nucleotide binding]; other site 314260005329 Right handed beta helix region; Region: Beta_helix; pfam13229 314260005330 Sel1-like repeats; Region: SEL1; smart00671 314260005331 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 314260005332 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 314260005333 Sel1-like repeats; Region: SEL1; smart00671 314260005334 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 314260005335 CPxP motif; other site 314260005336 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 314260005337 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 314260005338 non-specific DNA binding site [nucleotide binding]; other site 314260005339 salt bridge; other site 314260005340 sequence-specific DNA binding site [nucleotide binding]; other site 314260005341 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 314260005342 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 314260005343 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 314260005344 Beta-lactamase; Region: Beta-lactamase; pfam00144 314260005345 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260005346 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260005347 Beta-lactamase; Region: Beta-lactamase; pfam00144 314260005348 peptide chain release factor 1; Validated; Region: prfA; PRK00591 314260005349 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314260005350 RF-1 domain; Region: RF-1; pfam00472 314260005351 Surface antigen; Region: Surface_Ag_2; pfam01617 314260005352 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 314260005353 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 314260005354 S-adenosylmethionine binding site [chemical binding]; other site 314260005355 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 314260005356 catalytic core [active] 314260005357 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 314260005358 CoA binding domain; Region: CoA_binding; smart00881 314260005359 CoA-ligase; Region: Ligase_CoA; pfam00549 314260005360 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 314260005361 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 314260005362 TPP-binding site [chemical binding]; other site 314260005363 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 314260005364 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 314260005365 E3 interaction surface; other site 314260005366 lipoyl attachment site [posttranslational modification]; other site 314260005367 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 314260005368 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 314260005369 E3 interaction surface; other site 314260005370 lipoyl attachment site [posttranslational modification]; other site 314260005371 e3 binding domain; Region: E3_binding; pfam02817 314260005372 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 314260005373 GMP synthase; Reviewed; Region: guaA; PRK00074 314260005374 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 314260005375 AMP/PPi binding site [chemical binding]; other site 314260005376 candidate oxyanion hole; other site 314260005377 catalytic triad [active] 314260005378 potential glutamine specificity residues [chemical binding]; other site 314260005379 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 314260005380 ATP Binding subdomain [chemical binding]; other site 314260005381 Ligand Binding sites [chemical binding]; other site 314260005382 Dimerization subdomain; other site 314260005383 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314260005384 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 314260005385 ligand binding site [chemical binding]; other site 314260005386 flexible hinge region; other site 314260005387 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 314260005388 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 314260005389 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 314260005390 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 314260005391 NAD(P) binding site [chemical binding]; other site 314260005392 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260005393 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 314260005394 putative active site [active] 314260005395 putative metal binding site [ion binding]; other site 314260005396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 314260005397 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 314260005398 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 314260005399 transcription termination factor Rho; Provisional; Region: rho; PRK09376 314260005400 CsbD-like; Region: CsbD; pfam05532 314260005401 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 314260005402 dimerization interface [polypeptide binding]; other site 314260005403 metal binding site [ion binding]; metal-binding site 314260005404 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 314260005405 GAF domain; Region: GAF; pfam01590 314260005406 Phytochrome region; Region: PHY; pfam00360 314260005407 HWE histidine kinase; Region: HWE_HK; pfam07536 314260005408 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260005409 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 314260005410 active site 314260005411 phosphorylation site [posttranslational modification] 314260005412 intermolecular recognition site; other site 314260005413 dimerization interface [polypeptide binding]; other site 314260005414 two-component response regulator; Provisional; Region: PRK09191 314260005415 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 314260005416 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 314260005417 active site 314260005418 phosphorylation site [posttranslational modification] 314260005419 intermolecular recognition site; other site 314260005420 dimerization interface [polypeptide binding]; other site 314260005421 RNA polymerase sigma factor; Provisional; Region: PRK12547 314260005422 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260005423 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 314260005424 DNA binding residues [nucleotide binding] 314260005425 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260005426 Histidine kinase; Region: HisKA_2; pfam07568 314260005427 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 314260005428 ATP binding site [chemical binding]; other site 314260005429 Mg2+ binding site [ion binding]; other site 314260005430 G-X-G motif; other site 314260005431 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 314260005432 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260005433 active site 314260005434 HIGH motif; other site 314260005435 nucleotide binding site [chemical binding]; other site 314260005436 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314260005437 active site 314260005438 KMSKS motif; other site 314260005439 Pirin-related protein [General function prediction only]; Region: COG1741 314260005440 Pirin; Region: Pirin; pfam02678 314260005441 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 314260005442 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 314260005443 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 314260005444 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 314260005445 homoserine dehydrogenase; Provisional; Region: PRK06349 314260005446 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 314260005447 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 314260005448 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 314260005449 putative active site [active] 314260005450 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 314260005451 putative substrate translocation pore; other site 314260005452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260005453 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 314260005454 E-class dimer interface [polypeptide binding]; other site 314260005455 P-class dimer interface [polypeptide binding]; other site 314260005456 active site 314260005457 Cu2+ binding site [ion binding]; other site 314260005458 Zn2+ binding site [ion binding]; other site 314260005459 DNA gyrase subunit A; Validated; Region: PRK05560 314260005460 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 314260005461 CAP-like domain; other site 314260005462 active site 314260005463 primary dimer interface [polypeptide binding]; other site 314260005464 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005465 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005466 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005467 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005468 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005469 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 314260005470 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 314260005471 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 314260005472 active site 314260005473 (T/H)XGH motif; other site 314260005474 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 314260005475 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260005476 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314260005477 N-terminal domain interface [polypeptide binding]; other site 314260005478 dimer interface [polypeptide binding]; other site 314260005479 substrate binding pocket (H-site) [chemical binding]; other site 314260005480 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 314260005481 active site 314260005482 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 314260005483 active site 314260005484 Major Facilitator Superfamily; Region: MFS_1; pfam07690 314260005485 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 314260005486 putative substrate translocation pore; other site 314260005487 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005488 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 314260005489 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 314260005490 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 314260005491 active site 314260005492 interdomain interaction site; other site 314260005493 putative metal-binding site [ion binding]; other site 314260005494 nucleotide binding site [chemical binding]; other site 314260005495 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 314260005496 domain I; other site 314260005497 DNA binding groove [nucleotide binding] 314260005498 phosphate binding site [ion binding]; other site 314260005499 domain II; other site 314260005500 domain III; other site 314260005501 nucleotide binding site [chemical binding]; other site 314260005502 catalytic site [active] 314260005503 domain IV; other site 314260005504 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 314260005505 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 314260005506 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 314260005507 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 314260005508 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 314260005509 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 314260005510 dimer interface [polypeptide binding]; other site 314260005511 putative radical transfer pathway; other site 314260005512 diiron center [ion binding]; other site 314260005513 tyrosyl radical; other site 314260005514 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 314260005515 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 314260005516 Sporulation related domain; Region: SPOR; pfam05036 314260005517 Phasin protein; Region: Phasin_2; pfam09361 314260005518 Uncharacterized conserved protein [Function unknown]; Region: COG2127 314260005519 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 314260005520 Clp amino terminal domain; Region: Clp_N; pfam02861 314260005521 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 314260005522 Walker A motif; other site 314260005523 ATP binding site [chemical binding]; other site 314260005524 Walker B motif; other site 314260005525 arginine finger; other site 314260005526 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 314260005527 Walker A motif; other site 314260005528 ATP binding site [chemical binding]; other site 314260005529 Walker B motif; other site 314260005530 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 314260005531 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 314260005532 Predicted membrane protein [Function unknown]; Region: COG4325 314260005533 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 314260005534 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 314260005535 Ligand Binding Site [chemical binding]; other site 314260005536 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 314260005537 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 314260005538 CoA-ligase; Region: Ligase_CoA; pfam00549 314260005539 Preprotein translocase subunit; Region: YajC; pfam02699 314260005540 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 314260005541 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 314260005542 Protein export membrane protein; Region: SecD_SecF; pfam02355 314260005543 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260005544 Beta-lactamase; Region: Beta-lactamase; pfam00144 314260005545 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 314260005546 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 314260005547 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 314260005548 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 314260005549 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 314260005550 non-specific DNA binding site [nucleotide binding]; other site 314260005551 salt bridge; other site 314260005552 sequence-specific DNA binding site [nucleotide binding]; other site 314260005553 phosphoglycolate phosphatase; Provisional; Region: PRK13222 314260005554 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 314260005555 motif II; other site 314260005556 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 314260005557 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 314260005558 Substrate binding site; other site 314260005559 Mg++ binding site; other site 314260005560 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 314260005561 active site 314260005562 substrate binding site [chemical binding]; other site 314260005563 CoA binding site [chemical binding]; other site 314260005564 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 314260005565 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 314260005566 glutaminase active site [active] 314260005567 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 314260005568 dimer interface [polypeptide binding]; other site 314260005569 active site 314260005570 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 314260005571 dimer interface [polypeptide binding]; other site 314260005572 active site 314260005573 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 314260005574 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 314260005575 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 314260005576 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 314260005577 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 314260005578 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 314260005579 ATP binding site [chemical binding]; other site 314260005580 active site 314260005581 substrate binding site [chemical binding]; other site 314260005582 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 314260005583 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 314260005584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260005585 short chain dehydrogenase; Validated; Region: PRK07069 314260005586 NAD(P) binding site [chemical binding]; other site 314260005587 active site 314260005588 adenylosuccinate lyase; Provisional; Region: PRK07492 314260005589 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 314260005590 tetramer interface [polypeptide binding]; other site 314260005591 active site 314260005592 Flagellin N-methylase; Region: FliB; pfam03692 314260005593 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 314260005594 catalytic residues [active] 314260005595 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 314260005596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260005597 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 314260005598 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 314260005599 putative active site [active] 314260005600 putative catalytic site [active] 314260005601 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 314260005602 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314260005603 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 314260005604 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 314260005605 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314260005606 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 314260005607 SLBB domain; Region: SLBB; pfam10531 314260005608 Chain length determinant protein; Region: Wzz; cl15801 314260005609 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 314260005610 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; cl00846 314260005611 putative homodimer interface [polypeptide binding]; other site 314260005612 putative homotetramer interface [polypeptide binding]; other site 314260005613 putative allosteric switch controlling residues; other site 314260005614 putative metal binding site [ion binding]; other site 314260005615 putative homodimer-homodimer interface [polypeptide binding]; other site 314260005616 AAA domain; Region: AAA_31; pfam13614 314260005617 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314260005618 AAA domain; Region: AAA_22; pfam13401 314260005619 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 314260005620 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 314260005621 putative active site [active] 314260005622 putative catalytic site [active] 314260005623 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 314260005624 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 314260005625 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 314260005626 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 314260005627 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 314260005628 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 314260005629 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 314260005630 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260005631 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260005632 dihydroorotase; Validated; Region: PRK09060 314260005633 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 314260005634 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 314260005635 active site 314260005636 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 314260005637 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_15; cd04673 314260005638 nudix motif; other site 314260005639 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 314260005640 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 314260005641 active site 314260005642 nucleophile elbow; other site 314260005643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260005644 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 314260005645 NAD(P) binding site [chemical binding]; other site 314260005646 active site 314260005647 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 314260005648 histidyl-tRNA synthetase; Region: hisS; TIGR00442 314260005649 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 314260005650 dimer interface [polypeptide binding]; other site 314260005651 motif 1; other site 314260005652 active site 314260005653 motif 2; other site 314260005654 motif 3; other site 314260005655 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 314260005656 anticodon binding site; other site 314260005657 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 314260005658 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 314260005659 G1 box; other site 314260005660 putative GEF interaction site [polypeptide binding]; other site 314260005661 GTP/Mg2+ binding site [chemical binding]; other site 314260005662 Switch I region; other site 314260005663 G2 box; other site 314260005664 G3 box; other site 314260005665 Switch II region; other site 314260005666 G4 box; other site 314260005667 G5 box; other site 314260005668 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 314260005669 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 314260005670 Y-family of DNA polymerases; Region: PolY; cd00424 314260005671 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 314260005672 active site 314260005673 DNA binding site [nucleotide binding] 314260005674 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 314260005675 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 314260005676 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 314260005677 [2Fe-2S] cluster binding site [ion binding]; other site 314260005678 cytochrome b; Provisional; Region: CYTB; MTH00191 314260005679 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; cd00284 314260005680 Qi binding site; other site 314260005681 intrachain domain interface; other site 314260005682 interchain domain interface [polypeptide binding]; other site 314260005683 heme bH binding site [chemical binding]; other site 314260005684 heme bL binding site [chemical binding]; other site 314260005685 Qo binding site; other site 314260005686 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 314260005687 interchain domain interface [polypeptide binding]; other site 314260005688 intrachain domain interface; other site 314260005689 Qi binding site; other site 314260005690 Qo binding site; other site 314260005691 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 314260005692 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 314260005693 C factor cell-cell signaling protein; Provisional; Region: PRK09009 314260005694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260005695 NAD(P) binding site [chemical binding]; other site 314260005696 active site 314260005697 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 314260005698 active site 314260005699 multimer interface [polypeptide binding]; other site 314260005700 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 314260005701 Ca2+ binding site [ion binding]; other site 314260005702 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 314260005703 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 314260005704 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 314260005705 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 314260005706 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 314260005707 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 314260005708 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 314260005709 ribonuclease R; Region: RNase_R; TIGR02063 314260005710 RNB domain; Region: RNB; pfam00773 314260005711 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 314260005712 RNA binding site [nucleotide binding]; other site 314260005713 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 314260005714 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314260005715 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 314260005716 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 314260005717 Peptidase family M23; Region: Peptidase_M23; pfam01551 314260005718 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 314260005719 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 314260005720 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 314260005721 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 314260005722 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 314260005723 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 314260005724 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 314260005725 metal ion-dependent adhesion site (MIDAS); other site 314260005726 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 314260005727 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 314260005728 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 314260005729 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 314260005730 acyl-activating enzyme (AAE) consensus motif; other site 314260005731 AMP binding site [chemical binding]; other site 314260005732 active site 314260005733 CoA binding site [chemical binding]; other site 314260005734 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 314260005735 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 314260005736 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 314260005737 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260005738 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 314260005739 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260005740 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 314260005741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 314260005742 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260005743 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 314260005744 dimer interface [polypeptide binding]; other site 314260005745 phosphorylation site [posttranslational modification] 314260005746 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 314260005747 hypothetical protein; Provisional; Region: PRK13559 314260005748 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 314260005749 putative active site [active] 314260005750 heme pocket [chemical binding]; other site 314260005751 Histidine kinase; Region: HisKA_2; pfam07568 314260005752 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 314260005753 ATP binding site [chemical binding]; other site 314260005754 Mg2+ binding site [ion binding]; other site 314260005755 G-X-G motif; other site 314260005756 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 314260005757 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 314260005758 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 314260005759 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 314260005760 active site 314260005761 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 314260005762 Ferredoxin [Energy production and conversion]; Region: COG1146 314260005763 4Fe-4S binding domain; Region: Fer4; cl02805 314260005764 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 314260005765 Uncharacterized conserved protein [Function unknown]; Region: COG2938 314260005766 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_cladeB; cd00884 314260005767 active site clefts [active] 314260005768 zinc binding site [ion binding]; other site 314260005769 dimer interface [polypeptide binding]; other site 314260005770 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 314260005771 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 314260005772 active site 314260005773 phosphorylation site [posttranslational modification] 314260005774 intermolecular recognition site; other site 314260005775 dimerization interface [polypeptide binding]; other site 314260005776 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 314260005777 Walker A motif; other site 314260005778 ATP binding site [chemical binding]; other site 314260005779 Walker B motif; other site 314260005780 arginine finger; other site 314260005781 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 314260005782 DNA-binding interface [nucleotide binding]; DNA binding site 314260005783 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 314260005784 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 314260005785 ligand binding site [chemical binding]; other site 314260005786 homodimer interface [polypeptide binding]; other site 314260005787 NAD(P) binding site [chemical binding]; other site 314260005788 trimer interface B [polypeptide binding]; other site 314260005789 trimer interface A [polypeptide binding]; other site 314260005790 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 314260005791 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 314260005792 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 314260005793 putative active site [active] 314260005794 metal binding site [ion binding]; metal-binding site 314260005795 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 314260005796 active site 314260005797 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 314260005798 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 314260005799 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 314260005800 putative FMN binding site [chemical binding]; other site 314260005801 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 314260005802 catalytic core [active] 314260005803 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 314260005804 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 314260005805 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 314260005806 putative dimer interface [polypeptide binding]; other site 314260005807 Predicted methyltransferase [General function prediction only]; Region: COG4798 314260005808 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314260005809 SCP-2 sterol transfer family; Region: SCP2; cl01225 314260005810 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 314260005811 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 314260005812 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 314260005813 DNA protecting protein DprA; Region: dprA; TIGR00732 314260005814 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 314260005815 Nitrogen regulatory protein P-II; Region: P-II; smart00938 314260005816 Uncharacterized conserved protein [Function unknown]; Region: COG0062 314260005817 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 314260005818 putative substrate binding site [chemical binding]; other site 314260005819 putative ATP binding site [chemical binding]; other site 314260005820 Homeodomain-like domain; Region: HTH_23; cl17451 314260005821 Winged helix-turn helix; Region: HTH_29; pfam13551 314260005822 Homeodomain-like domain; Region: HTH_32; pfam13565 314260005823 Winged helix-turn helix; Region: HTH_33; pfam13592 314260005824 DDE superfamily endonuclease; Region: DDE_3; pfam13358 314260005825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 314260005826 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 314260005827 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005828 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 314260005829 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 314260005830 putative NAD(P) binding site [chemical binding]; other site 314260005831 putative substrate binding site [chemical binding]; other site 314260005832 catalytic Zn binding site [ion binding]; other site 314260005833 structural Zn binding site [ion binding]; other site 314260005834 dimer interface [polypeptide binding]; other site 314260005835 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 314260005836 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 314260005837 FMN binding site [chemical binding]; other site 314260005838 substrate binding site [chemical binding]; other site 314260005839 putative catalytic residue [active] 314260005840 malate synthase G; Provisional; Region: PRK02999 314260005841 active site 314260005842 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 314260005843 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 314260005844 putative DNA binding site [nucleotide binding]; other site 314260005845 putative Zn2+ binding site [ion binding]; other site 314260005846 AsnC family; Region: AsnC_trans_reg; pfam01037 314260005847 exopolyphosphatase; Region: exo_poly_only; TIGR03706 314260005848 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 314260005849 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 314260005850 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 314260005851 S-adenosylmethionine binding site [chemical binding]; other site 314260005852 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 314260005853 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 314260005854 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 314260005855 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 314260005856 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 314260005857 active site 314260005858 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 314260005859 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 314260005860 S-adenosylmethionine binding site [chemical binding]; other site 314260005861 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 314260005862 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 314260005863 classical (c) SDRs; Region: SDR_c; cd05233 314260005864 NAD(P) binding site [chemical binding]; other site 314260005865 active site 314260005866 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 314260005867 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 314260005868 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 314260005869 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 314260005870 beta-carotene hydroxylase; Region: PLN02601 314260005871 Beta-carotene ketolase/oxygenase (CrtW, also known as CrtO), the carotenoid astaxanthin biosynthetic enzyme, initially catalyzes the addition of two keto groups to carbons C4 and C4' of beta-carotene. Carotenoids are important natural pigments...; Region: CrtW_beta-carotene-ketolase; cd03513 314260005872 putative di-iron ligands [ion binding]; other site 314260005873 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 314260005874 active site lid residues [active] 314260005875 substrate binding pocket [chemical binding]; other site 314260005876 catalytic residues [active] 314260005877 substrate-Mg2+ binding site; other site 314260005878 aspartate-rich region 1; other site 314260005879 aspartate-rich region 2; other site 314260005880 phytoene desaturase; Region: crtI_fam; TIGR02734 314260005881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314260005882 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 314260005883 lycopene cyclase; Region: lycopene_cycl; TIGR01789 314260005884 NADH dehydrogenase; Validated; Region: PRK08183 314260005885 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 314260005886 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 314260005887 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 314260005888 hypothetical protein; Provisional; Region: PRK07338 314260005889 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 314260005890 metal binding site [ion binding]; metal-binding site 314260005891 dimer interface [polypeptide binding]; other site 314260005892 Uncharacterized conserved protein [Function unknown]; Region: COG0397 314260005893 hypothetical protein; Validated; Region: PRK00029 314260005894 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 314260005895 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 314260005896 acetylglutamate kinase; Provisional; Region: PRK04531 314260005897 AAK_NAGK-fArgBP: N-Acetyl-L-glutamate kinase (NAGK) of the fungal arginine-biosynthetic pathway (fArgBP). The nuclear-encoded, mitochondrial polyprotein precursor with an N-terminal NAGK (ArgB) domain (this CD), a central DUF619 domain, and a C-terminal...; Region: AAK_NAGK-fArgBP; cd04252 314260005898 putative nucleotide binding site [chemical binding]; other site 314260005899 putative N-acetyl-L-glutamate binding site [chemical binding]; other site 314260005900 DUF619 domain of various N-acetylglutamate Synthases (NAGS) of the urea (U) cycle of humans and fish; Region: DUF619-NAGS-U; cd04265 314260005901 acetylornithine deacetylase; Provisional; Region: PRK08737 314260005902 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314260005903 metal binding site [ion binding]; metal-binding site 314260005904 argininosuccinate synthase; Provisional; Region: PRK04527 314260005905 argininosuccinate synthase; Provisional; Region: PRK13820 314260005906 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 314260005907 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 314260005908 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 314260005909 argininosuccinate lyase; Provisional; Region: PRK00855 314260005910 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 314260005911 active sites [active] 314260005912 tetramer interface [polypeptide binding]; other site 314260005913 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 314260005914 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 314260005915 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314260005916 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260005917 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 314260005918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260005919 Walker A/P-loop; other site 314260005920 ATP binding site [chemical binding]; other site 314260005921 Q-loop/lid; other site 314260005922 ABC transporter signature motif; other site 314260005923 Walker B; other site 314260005924 D-loop; other site 314260005925 H-loop/switch region; other site 314260005926 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314260005927 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005928 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260005929 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005930 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 314260005931 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 314260005932 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 314260005933 active site 314260005934 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 314260005935 thymidylate kinase; Validated; Region: tmk; PRK00698 314260005936 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 314260005937 TMP-binding site; other site 314260005938 ATP-binding site [chemical binding]; other site 314260005939 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 314260005940 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 314260005941 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 314260005942 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 314260005943 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 314260005944 isocitrate dehydrogenase; Validated; Region: PRK08299 314260005945 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 314260005946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260005947 Walker A/P-loop; other site 314260005948 ATP binding site [chemical binding]; other site 314260005949 Q-loop/lid; other site 314260005950 ABC transporter signature motif; other site 314260005951 Walker B; other site 314260005952 D-loop; other site 314260005953 H-loop/switch region; other site 314260005954 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 314260005955 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 314260005956 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 314260005957 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 314260005958 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 314260005959 active site 314260005960 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 314260005961 Fatty acid desaturase; Region: FA_desaturase; pfam00487 314260005962 putative di-iron ligands [ion binding]; other site 314260005963 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 314260005964 glutamate--cysteine ligase; Region: PLN02611 314260005965 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 314260005966 RNA methyltransferase, RsmE family; Region: TIGR00046 314260005967 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 314260005968 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 314260005969 dimer interface [polypeptide binding]; other site 314260005970 ssDNA binding site [nucleotide binding]; other site 314260005971 tetramer (dimer of dimers) interface [polypeptide binding]; other site 314260005972 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 314260005973 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260005974 OmpW family; Region: OmpW; cl17427 314260005975 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 314260005976 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314260005977 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 314260005978 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 314260005979 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 314260005980 Glucose inhibited division protein A; Region: GIDA; pfam01134 314260005981 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 314260005982 helix-hairpin-helix signature motif; other site 314260005983 substrate binding pocket [chemical binding]; other site 314260005984 active site 314260005985 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314260005986 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314260005987 substrate binding pocket [chemical binding]; other site 314260005988 chain length determination region; other site 314260005989 substrate-Mg2+ binding site; other site 314260005990 catalytic residues [active] 314260005991 aspartate-rich region 1; other site 314260005992 active site lid residues [active] 314260005993 aspartate-rich region 2; other site 314260005994 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 314260005995 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 314260005996 homotetramer interface [polypeptide binding]; other site 314260005997 FMN binding site [chemical binding]; other site 314260005998 homodimer contacts [polypeptide binding]; other site 314260005999 putative active site [active] 314260006000 putative substrate binding site [chemical binding]; other site 314260006001 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 314260006002 putative binding surface; other site 314260006003 active site 314260006004 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 314260006005 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 314260006006 catalytic site [active] 314260006007 G-X2-G-X-G-K; other site 314260006008 hypothetical protein; Provisional; Region: PRK11820 314260006009 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 314260006010 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 314260006011 YceG-like family; Region: YceG; pfam02618 314260006012 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 314260006013 dimerization interface [polypeptide binding]; other site 314260006014 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 314260006015 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 314260006016 dimer interface [polypeptide binding]; other site 314260006017 active site 314260006018 acyl carrier protein; Provisional; Region: acpP; PRK00982 314260006019 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 314260006020 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 314260006021 homotetramer interface [polypeptide binding]; other site 314260006022 NAD(P) binding site [chemical binding]; other site 314260006023 homodimer interface [polypeptide binding]; other site 314260006024 active site 314260006025 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 314260006026 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 314260006027 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314260006028 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314260006029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260006030 Walker A/P-loop; other site 314260006031 ATP binding site [chemical binding]; other site 314260006032 Q-loop/lid; other site 314260006033 ABC transporter signature motif; other site 314260006034 Walker B; other site 314260006035 D-loop; other site 314260006036 H-loop/switch region; other site 314260006037 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 314260006038 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 314260006039 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260006040 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 314260006041 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260006042 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 314260006043 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 314260006044 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 314260006045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 314260006046 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 314260006047 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 314260006048 Methyltransferase domain; Region: Methyltransf_23; pfam13489 314260006049 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 314260006050 S-adenosylmethionine binding site [chemical binding]; other site 314260006051 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 314260006052 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 314260006053 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 314260006054 putative ADP-binding pocket [chemical binding]; other site 314260006055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260006056 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 314260006057 putative trimer interface [polypeptide binding]; other site 314260006058 putative active site [active] 314260006059 putative substrate binding site [chemical binding]; other site 314260006060 putative CoA binding site [chemical binding]; other site 314260006061 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 314260006062 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 314260006063 putative metal binding site; other site 314260006064 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 314260006065 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 314260006066 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260006067 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 314260006068 active site 314260006069 metal binding site [ion binding]; metal-binding site 314260006070 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 314260006071 O-Antigen ligase; Region: Wzy_C; pfam04932 314260006072 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 314260006073 Chain length determinant protein; Region: Wzz; pfam02706 314260006074 Chain length determinant protein; Region: Wzz; cl15801 314260006075 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 314260006076 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 314260006077 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 314260006078 SLBB domain; Region: SLBB; pfam10531 314260006079 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 314260006080 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 314260006081 MG2 domain; Region: A2M_N; pfam01835 314260006082 Alpha-2-macroglobulin family; Region: A2M; pfam00207 314260006083 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 314260006084 surface patch; other site 314260006085 thioester region; other site 314260006086 specificity defining residues; other site 314260006087 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 314260006088 Transglycosylase; Region: Transgly; pfam00912 314260006089 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 314260006090 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 314260006091 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 314260006092 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260006093 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 314260006094 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260006095 Walker A/P-loop; other site 314260006096 ATP binding site [chemical binding]; other site 314260006097 Q-loop/lid; other site 314260006098 ABC transporter signature motif; other site 314260006099 Walker B; other site 314260006100 D-loop; other site 314260006101 H-loop/switch region; other site 314260006102 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 314260006103 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 314260006104 ABC-ATPase subunit interface; other site 314260006105 dimer interface [polypeptide binding]; other site 314260006106 putative PBP binding regions; other site 314260006107 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 314260006108 intersubunit interface [polypeptide binding]; other site 314260006109 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 314260006110 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260006111 N-terminal plug; other site 314260006112 ligand-binding site [chemical binding]; other site 314260006113 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 314260006114 Helix-turn-helix domain; Region: HTH_17; pfam12728 314260006115 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 314260006116 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 314260006117 active site 314260006118 Int/Topo IB signature motif; other site 314260006119 DNA binding site [nucleotide binding] 314260006120 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 314260006121 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 314260006122 homodimer interface [polypeptide binding]; other site 314260006123 substrate-cofactor binding pocket; other site 314260006124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260006125 catalytic residue [active] 314260006126 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 314260006127 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314260006128 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 314260006129 Glutamine amidotransferase class-I; Region: GATase; pfam00117 314260006130 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314260006131 glutamine binding [chemical binding]; other site 314260006132 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 314260006133 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 314260006134 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 314260006135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 314260006136 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260006137 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 314260006138 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 314260006139 active site 314260006140 dimer interface [polypeptide binding]; other site 314260006141 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 314260006142 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 314260006143 active site 314260006144 FMN binding site [chemical binding]; other site 314260006145 substrate binding site [chemical binding]; other site 314260006146 3Fe-4S cluster binding site [ion binding]; other site 314260006147 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 314260006148 domain interface; other site 314260006149 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 314260006150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260006151 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 314260006152 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 314260006153 putative C-terminal domain interface [polypeptide binding]; other site 314260006154 putative GSH binding site (G-site) [chemical binding]; other site 314260006155 putative dimer interface [polypeptide binding]; other site 314260006156 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314260006157 N-terminal domain interface [polypeptide binding]; other site 314260006158 dimer interface [polypeptide binding]; other site 314260006159 substrate binding pocket (H-site) [chemical binding]; other site 314260006160 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 314260006161 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 314260006162 C-terminal domain interface [polypeptide binding]; other site 314260006163 GSH binding site (G-site) [chemical binding]; other site 314260006164 dimer interface [polypeptide binding]; other site 314260006165 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 314260006166 N-terminal domain interface [polypeptide binding]; other site 314260006167 dimer interface [polypeptide binding]; other site 314260006168 substrate binding pocket (H-site) [chemical binding]; other site 314260006169 choline dehydrogenase; Validated; Region: PRK02106 314260006170 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 314260006171 amidase; Provisional; Region: PRK09201 314260006172 Amidase; Region: Amidase; cl11426 314260006173 Amidase; Region: Amidase; cl11426 314260006174 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 314260006175 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 314260006176 allantoate amidohydrolase; Reviewed; Region: PRK09290 314260006177 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 314260006178 active site 314260006179 metal binding site [ion binding]; metal-binding site 314260006180 dimer interface [polypeptide binding]; other site 314260006181 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 314260006182 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260006183 catalytic residue [active] 314260006184 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 314260006185 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 314260006186 active site 314260006187 catalytic site [active] 314260006188 tetramer interface [polypeptide binding]; other site 314260006189 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 314260006190 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 314260006191 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 314260006192 hydroxyglutarate oxidase; Provisional; Region: PRK11728 314260006193 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 314260006194 active site 314260006195 homotetramer interface [polypeptide binding]; other site 314260006196 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 314260006197 Cupin domain; Region: Cupin_2; cl17218 314260006198 Purine nucleoside permease (NUP); Region: NUP; pfam06516 314260006199 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 314260006200 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 314260006201 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 314260006202 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 314260006203 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 314260006204 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 314260006205 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 314260006206 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 314260006207 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 314260006208 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 314260006209 XdhC Rossmann domain; Region: XdhC_C; pfam13478 314260006210 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 314260006211 guanine deaminase; Region: guan_deamin; TIGR02967 314260006212 active site 314260006213 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 314260006214 active site 314260006215 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 314260006216 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 314260006217 active site 314260006218 putative substrate binding pocket [chemical binding]; other site 314260006219 xanthine permease; Region: pbuX; TIGR03173 314260006220 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260006221 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260006222 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 314260006223 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 314260006224 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 314260006225 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 314260006226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260006227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314260006228 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260006229 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 314260006230 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 314260006231 Predicted transporter component [General function prediction only]; Region: COG2391 314260006232 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 314260006233 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 314260006234 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 314260006235 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260006236 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314260006237 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260006238 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 314260006239 trimer interface [polypeptide binding]; other site 314260006240 dimer interface [polypeptide binding]; other site 314260006241 putative active site [active] 314260006242 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 314260006243 MPT binding site; other site 314260006244 trimer interface [polypeptide binding]; other site 314260006245 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 314260006246 MoaD interaction [polypeptide binding]; other site 314260006247 active site residues [active] 314260006248 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 314260006249 Autotransporter beta-domain; Region: Autotransporter; smart00869 314260006250 YceI-like domain; Region: YceI; pfam04264 314260006251 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 314260006252 active site 314260006253 catalytic triad [active] 314260006254 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 314260006255 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260006256 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 314260006257 DNA binding residues [nucleotide binding] 314260006258 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 314260006259 Uncharacterized conserved protein [Function unknown]; Region: COG1262 314260006260 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 314260006261 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 314260006262 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 314260006263 potential catalytic triad [active] 314260006264 conserved cys residue [active] 314260006265 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 314260006266 Sulfatase; Region: Sulfatase; pfam00884 314260006267 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 314260006268 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 314260006269 Peptidase family M48; Region: Peptidase_M48; pfam01435 314260006270 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 314260006271 classical (c) SDRs; Region: SDR_c; cd05233 314260006272 NAD(P) binding site [chemical binding]; other site 314260006273 active site 314260006274 Protein of unknown function (DUF465); Region: DUF465; cl01070 314260006275 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 314260006276 Flavoprotein; Region: Flavoprotein; pfam02441 314260006277 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 314260006278 Protein of unknown function (DUF465); Region: DUF465; pfam04325 314260006279 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 314260006280 MgtE intracellular N domain; Region: MgtE_N; pfam03448 314260006281 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 314260006282 Divalent cation transporter; Region: MgtE; cl00786 314260006283 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 314260006284 conserved hypothetical protein; Region: MG423; TIGR00649 314260006285 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 314260006286 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 314260006287 pantothenate kinase; Reviewed; Region: PRK13318 314260006288 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 314260006289 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 314260006290 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 314260006291 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 314260006292 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260006293 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 314260006294 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260006295 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 314260006296 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 314260006297 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260006298 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 314260006299 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 314260006300 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00057 314260006301 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 314260006302 recombinase A; Provisional; Region: recA; PRK09354 314260006303 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 314260006304 hexamer interface [polypeptide binding]; other site 314260006305 Walker A motif; other site 314260006306 ATP binding site [chemical binding]; other site 314260006307 Walker B motif; other site 314260006308 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 314260006309 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 314260006310 N- and C-terminal domain interface [polypeptide binding]; other site 314260006311 active site 314260006312 MgATP binding site [chemical binding]; other site 314260006313 catalytic site [active] 314260006314 metal binding site [ion binding]; metal-binding site 314260006315 glycerol binding site [chemical binding]; other site 314260006316 homotetramer interface [polypeptide binding]; other site 314260006317 homodimer interface [polypeptide binding]; other site 314260006318 FBP binding site [chemical binding]; other site 314260006319 protein IIAGlc interface [polypeptide binding]; other site 314260006320 PilZ domain; Region: PilZ; pfam07238 314260006321 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 314260006322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 314260006323 metal binding site [ion binding]; metal-binding site 314260006324 active site 314260006325 I-site; other site 314260006326 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 314260006327 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 314260006328 dimer interface [polypeptide binding]; other site 314260006329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260006330 catalytic residue [active] 314260006331 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 314260006332 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260006333 Coenzyme A binding pocket [chemical binding]; other site 314260006334 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 314260006335 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 314260006336 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 314260006337 catalytic residue [active] 314260006338 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 314260006339 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 314260006340 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 314260006341 active site 314260006342 HIGH motif; other site 314260006343 dimer interface [polypeptide binding]; other site 314260006344 KMSKS motif; other site 314260006345 S4 RNA-binding domain; Region: S4; smart00363 314260006346 RNA binding surface [nucleotide binding]; other site 314260006347 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 314260006348 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 314260006349 S-adenosylmethionine binding site [chemical binding]; other site 314260006350 trigger factor; Provisional; Region: tig; PRK01490 314260006351 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 314260006352 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 314260006353 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 314260006354 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 314260006355 Ligand binding site; other site 314260006356 Putative Catalytic site; other site 314260006357 DXD motif; other site 314260006358 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 314260006359 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 314260006360 Alkaline phosphatase homologues; Region: alkPPc; smart00098 314260006361 active site 314260006362 dimer interface [polypeptide binding]; other site 314260006363 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 314260006364 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 314260006365 HflX GTPase family; Region: HflX; cd01878 314260006366 G1 box; other site 314260006367 GTP/Mg2+ binding site [chemical binding]; other site 314260006368 Switch I region; other site 314260006369 G2 box; other site 314260006370 G3 box; other site 314260006371 Switch II region; other site 314260006372 G4 box; other site 314260006373 G5 box; other site 314260006374 bacterial Hfq-like; Region: Hfq; cd01716 314260006375 hexamer interface [polypeptide binding]; other site 314260006376 Sm1 motif; other site 314260006377 RNA binding site [nucleotide binding]; other site 314260006378 Sm2 motif; other site 314260006379 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 314260006380 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 314260006381 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 314260006382 TrkA-N domain; Region: TrkA_N; pfam02254 314260006383 TrkA-C domain; Region: TrkA_C; pfam02080 314260006384 TrkA-N domain; Region: TrkA_N; pfam02254 314260006385 TrkA-C domain; Region: TrkA_C; pfam02080 314260006386 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 314260006387 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 314260006388 GDP-binding site [chemical binding]; other site 314260006389 ACT binding site; other site 314260006390 IMP binding site; other site 314260006391 EamA-like transporter family; Region: EamA; pfam00892 314260006392 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 314260006393 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 314260006394 putative metal binding site [ion binding]; other site 314260006395 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 314260006396 HSP70 interaction site [polypeptide binding]; other site 314260006397 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 314260006398 DNA-binding site [nucleotide binding]; DNA binding site 314260006399 RNA-binding motif; other site 314260006400 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 314260006401 SmpB-tmRNA interface; other site 314260006402 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 314260006403 ABC1 family; Region: ABC1; cl17513 314260006404 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 314260006405 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 314260006406 dimer interface [polypeptide binding]; other site 314260006407 active site 314260006408 catalytic residue [active] 314260006409 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 314260006410 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 314260006411 N-acetyl-D-glucosamine binding site [chemical binding]; other site 314260006412 catalytic residue [active] 314260006413 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 314260006414 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 314260006415 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 314260006416 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 314260006417 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314260006418 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 314260006419 lipoyl synthase; Provisional; Region: PRK05481 314260006420 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 314260006421 FeS/SAM binding site; other site 314260006422 enolase; Provisional; Region: eno; PRK00077 314260006423 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 314260006424 dimer interface [polypeptide binding]; other site 314260006425 metal binding site [ion binding]; metal-binding site 314260006426 substrate binding pocket [chemical binding]; other site 314260006427 CTP synthetase; Validated; Region: pyrG; PRK05380 314260006428 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 314260006429 Catalytic site [active] 314260006430 active site 314260006431 UTP binding site [chemical binding]; other site 314260006432 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 314260006433 active site 314260006434 putative oxyanion hole; other site 314260006435 catalytic triad [active] 314260006436 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 314260006437 IHF dimer interface [polypeptide binding]; other site 314260006438 IHF - DNA interface [nucleotide binding]; other site 314260006439 DEAD-like helicases superfamily; Region: DEXDc; smart00487 314260006440 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 314260006441 ATP binding site [chemical binding]; other site 314260006442 putative Mg++ binding site [ion binding]; other site 314260006443 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 314260006444 nucleotide binding region [chemical binding]; other site 314260006445 ATP-binding site [chemical binding]; other site 314260006446 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 314260006447 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 314260006448 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 314260006449 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 314260006450 dimer interface [polypeptide binding]; other site 314260006451 phosphorylation site [posttranslational modification] 314260006452 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 314260006453 ATP binding site [chemical binding]; other site 314260006454 Mg2+ binding site [ion binding]; other site 314260006455 G-X-G motif; other site 314260006456 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260006457 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 314260006458 active site 314260006459 phosphorylation site [posttranslational modification] 314260006460 intermolecular recognition site; other site 314260006461 dimerization interface [polypeptide binding]; other site 314260006462 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 314260006463 active site 314260006464 nucleophile elbow; other site 314260006465 Domain of unknown function DUF302; Region: DUF302; cl01364 314260006466 Domain of unknown function DUF87; Region: DUF87; pfam01935 314260006467 AAA-like domain; Region: AAA_10; pfam12846 314260006468 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 314260006469 dimer interface [polypeptide binding]; other site 314260006470 phosphorylation site [posttranslational modification] 314260006471 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 314260006472 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 314260006473 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 314260006474 enoyl-CoA hydratase; Provisional; Region: PRK05862 314260006475 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 314260006476 substrate binding site [chemical binding]; other site 314260006477 oxyanion hole (OAH) forming residues; other site 314260006478 trimer interface [polypeptide binding]; other site 314260006479 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 314260006480 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314260006481 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 314260006482 short chain dehydrogenase; Provisional; Region: PRK09134 314260006483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260006484 NAD(P) binding site [chemical binding]; other site 314260006485 active site 314260006486 Dihydroneopterin aldolase; Region: FolB; pfam02152 314260006487 active site 314260006488 queuosine biosynthesis protein QueD; Region: queuosine_QueD; TIGR03367 314260006489 active site 314260006490 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 314260006491 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 314260006492 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 314260006493 PA/protease or protease-like domain interface [polypeptide binding]; other site 314260006494 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 314260006495 metal binding site [ion binding]; metal-binding site 314260006496 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 314260006497 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 314260006498 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 314260006499 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 314260006500 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 314260006501 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 314260006502 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 314260006503 metal binding site 2 [ion binding]; metal-binding site 314260006504 putative DNA binding helix; other site 314260006505 metal binding site 1 [ion binding]; metal-binding site 314260006506 structural Zn2+ binding site [ion binding]; other site 314260006507 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 314260006508 Bacterial PH domain; Region: DUF304; pfam03703 314260006509 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 314260006510 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 314260006511 Walker A motif; other site 314260006512 ATP binding site [chemical binding]; other site 314260006513 Walker B motif; other site 314260006514 arginine finger; other site 314260006515 Bacterial PH domain; Region: DUF304; pfam03703 314260006516 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 314260006517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260006518 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 314260006519 ATP binding site [chemical binding]; other site 314260006520 Mg2+ binding site [ion binding]; other site 314260006521 G-X-G motif; other site 314260006522 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260006523 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 314260006524 active site 314260006525 phosphorylation site [posttranslational modification] 314260006526 intermolecular recognition site; other site 314260006527 dimerization interface [polypeptide binding]; other site 314260006528 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 314260006529 DNA binding site [nucleotide binding] 314260006530 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 314260006531 active site 314260006532 metal binding site [ion binding]; metal-binding site 314260006533 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 314260006534 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 314260006535 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 314260006536 Multicopper oxidase; Region: Cu-oxidase; pfam00394 314260006537 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 314260006538 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 314260006539 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 314260006540 SnoaL-like domain; Region: SnoaL_3; pfam13474 314260006541 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 314260006542 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314260006543 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 314260006544 motif II; other site 314260006545 Protein of unknown function, DUF; Region: DUF411; pfam04214 314260006546 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 314260006547 Domain of unknown function (DUF305); Region: DUF305; cl17794 314260006548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 314260006549 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 314260006550 active site residue [active] 314260006551 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 314260006552 putative homodimer interface [polypeptide binding]; other site 314260006553 putative homotetramer interface [polypeptide binding]; other site 314260006554 putative allosteric switch controlling residues; other site 314260006555 putative metal binding site [ion binding]; other site 314260006556 putative homodimer-homodimer interface [polypeptide binding]; other site 314260006557 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 314260006558 Outer membrane efflux protein; Region: OEP; pfam02321 314260006559 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 314260006560 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260006561 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260006562 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314260006563 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314260006564 hypothetical protein; Provisional; Region: PRK02237 314260006565 mercuric reductase; Region: MerA; TIGR02053 314260006566 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260006567 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260006568 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 314260006569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260006570 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260006571 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 314260006572 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 314260006573 metal-binding site [ion binding] 314260006574 MerT mercuric transport protein; Region: MerT; cl03578 314260006575 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 314260006576 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 314260006577 DNA binding residues [nucleotide binding] 314260006578 dimer interface [polypeptide binding]; other site 314260006579 putative metal binding site [ion binding]; other site 314260006580 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260006581 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 314260006582 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260006583 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314260006584 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 314260006585 Antirestriction protein (ArdA); Region: ArdA; pfam07275 314260006586 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 314260006587 ParB-like nuclease domain; Region: ParB; smart00470 314260006588 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260006589 Helix-turn-helix domain; Region: HTH_17; pfam12728 314260006590 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 314260006591 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 314260006592 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 314260006593 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 314260006594 shikimate kinase II; Reviewed; Region: aroL; cl17327 314260006595 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 314260006596 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 314260006597 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 314260006598 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 314260006599 non-specific DNA binding site [nucleotide binding]; other site 314260006600 salt bridge; other site 314260006601 sequence-specific DNA binding site [nucleotide binding]; other site 314260006602 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 314260006603 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 314260006604 Walker A motif; other site 314260006605 ATP binding site [chemical binding]; other site 314260006606 Walker B motif; other site 314260006607 Protein of unknown function (DUF433); Region: DUF433; pfam04255 314260006608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 314260006609 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 314260006610 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 314260006611 ATP binding site [chemical binding]; other site 314260006612 Walker A motif; other site 314260006613 hexamer interface [polypeptide binding]; other site 314260006614 Walker B motif; other site 314260006615 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 314260006616 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 314260006617 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 314260006618 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 314260006619 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 314260006620 Walker A motif; other site 314260006621 ATP binding site [chemical binding]; other site 314260006622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260006623 Walker B; other site 314260006624 D-loop; other site 314260006625 H-loop/switch region; other site 314260006626 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 314260006627 conjugal transfer protein TrbL; Provisional; Region: PRK13875 314260006628 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 314260006629 conjugal transfer protein TrbF; Provisional; Region: PRK13872 314260006630 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 314260006631 VirB7 interaction site; other site 314260006632 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 314260006633 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 314260006634 Protein of unknown function (DUF736); Region: DUF736; pfam05284 314260006635 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_10; cd04623 314260006636 FOG: CBS domain [General function prediction only]; Region: COG0517 314260006637 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 314260006638 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 314260006639 osmolarity response regulator; Provisional; Region: ompR; PRK09468 314260006640 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 314260006641 active site 314260006642 phosphorylation site [posttranslational modification] 314260006643 intermolecular recognition site; other site 314260006644 dimerization interface [polypeptide binding]; other site 314260006645 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 314260006646 DNA binding site [nucleotide binding] 314260006647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260006648 HAMP domain; Region: HAMP; pfam00672 314260006649 dimerization interface [polypeptide binding]; other site 314260006650 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 314260006651 dimer interface [polypeptide binding]; other site 314260006652 phosphorylation site [posttranslational modification] 314260006653 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 314260006654 ATP binding site [chemical binding]; other site 314260006655 Mg2+ binding site [ion binding]; other site 314260006656 G-X-G motif; other site 314260006657 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 314260006658 PQQ-like domain; Region: PQQ_2; pfam13360 314260006659 Trp docking motif [polypeptide binding]; other site 314260006660 active site 314260006661 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 314260006662 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 314260006663 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 314260006664 substrate-cofactor binding pocket; other site 314260006665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260006666 catalytic residue [active] 314260006667 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 314260006668 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 314260006669 Coenzyme A binding pocket [chemical binding]; other site 314260006670 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 314260006671 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 314260006672 NAD(P) binding site [chemical binding]; other site 314260006673 SnoaL-like domain; Region: SnoaL_2; pfam12680 314260006674 DnaJ chaperone protein; Provisional; Region: PTZ00100 314260006675 ATPase MipZ; Region: MipZ; pfam09140 314260006676 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 314260006677 P-loop; other site 314260006678 Magnesium ion binding site [ion binding]; other site 314260006679 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 314260006680 Magnesium ion binding site [ion binding]; other site 314260006681 Sporulation related domain; Region: SPOR; pfam05036 314260006682 pantoate--beta-alanine ligase; Region: panC; TIGR00018 314260006683 Pantoate-beta-alanine ligase; Region: PanC; cd00560 314260006684 active site 314260006685 ATP-binding site [chemical binding]; other site 314260006686 pantoate-binding site; other site 314260006687 HXXH motif; other site 314260006688 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 314260006689 Carboxylesterase family; Region: COesterase; pfam00135 314260006690 substrate binding pocket [chemical binding]; other site 314260006691 catalytic triad [active] 314260006692 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 314260006693 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 314260006694 dimer interface [polypeptide binding]; other site 314260006695 active site residues [active] 314260006696 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 314260006697 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 314260006698 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 314260006699 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 314260006700 GAF domain; Region: GAF; pfam01590 314260006701 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 314260006702 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 314260006703 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 314260006704 aspartate kinase; Reviewed; Region: PRK06635 314260006705 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 314260006706 putative nucleotide binding site [chemical binding]; other site 314260006707 putative catalytic residues [active] 314260006708 putative Mg ion binding site [ion binding]; other site 314260006709 putative aspartate binding site [chemical binding]; other site 314260006710 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 314260006711 putative allosteric regulatory site; other site 314260006712 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 314260006713 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 314260006714 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 314260006715 S-adenosylmethionine binding site [chemical binding]; other site 314260006716 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 314260006717 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 314260006718 Competence protein; Region: Competence; pfam03772 314260006719 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 314260006720 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 314260006721 active site 314260006722 HIGH motif; other site 314260006723 nucleotide binding site [chemical binding]; other site 314260006724 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 314260006725 active site 314260006726 KMSKS motif; other site 314260006727 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 314260006728 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 314260006729 dimer interface [polypeptide binding]; other site 314260006730 active site 314260006731 citrylCoA binding site [chemical binding]; other site 314260006732 NADH binding [chemical binding]; other site 314260006733 cationic pore residues; other site 314260006734 oxalacetate/citrate binding site [chemical binding]; other site 314260006735 coenzyme A binding site [chemical binding]; other site 314260006736 catalytic triad [active] 314260006737 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 314260006738 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 314260006739 NAD(P) binding site [chemical binding]; other site 314260006740 catalytic residues [active] 314260006741 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 314260006742 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 314260006743 23S rRNA interface [nucleotide binding]; other site 314260006744 L3 interface [polypeptide binding]; other site 314260006745 FOG: WD40-like repeat [Function unknown]; Region: COG1520 314260006746 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 314260006747 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 314260006748 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 314260006749 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 314260006750 Bacterial sugar transferase; Region: Bac_transf; pfam02397 314260006751 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 314260006752 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 314260006753 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 314260006754 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 314260006755 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 314260006756 Mechanosensitive ion channel; Region: MS_channel; pfam00924 314260006757 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 314260006758 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 314260006759 Cl binding site [ion binding]; other site 314260006760 oligomer interface [polypeptide binding]; other site 314260006761 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314260006762 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314260006763 Walker A/P-loop; other site 314260006764 ATP binding site [chemical binding]; other site 314260006765 Q-loop/lid; other site 314260006766 ABC transporter signature motif; other site 314260006767 Walker B; other site 314260006768 D-loop; other site 314260006769 H-loop/switch region; other site 314260006770 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314260006771 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 314260006772 FtsX-like permease family; Region: FtsX; pfam02687 314260006773 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 314260006774 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 314260006775 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 314260006776 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 314260006777 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 314260006778 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 314260006779 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 314260006780 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 314260006781 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 314260006782 Tetramer interface [polypeptide binding]; other site 314260006783 active site 314260006784 FMN-binding site [chemical binding]; other site 314260006785 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 314260006786 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 314260006787 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 314260006788 nitrilase; Region: PLN02798 314260006789 putative active site [active] 314260006790 catalytic triad [active] 314260006791 dimer interface [polypeptide binding]; other site 314260006792 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 314260006793 GSH binding site [chemical binding]; other site 314260006794 catalytic residues [active] 314260006795 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 314260006796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 314260006797 active site 314260006798 Methyltransferase domain; Region: Methyltransf_11; pfam08241 314260006799 Flp/Fap pilin component; Region: Flp_Fap; cl01585 314260006800 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 314260006801 active site 314260006802 8-oxo-dGMP binding site [chemical binding]; other site 314260006803 nudix motif; other site 314260006804 metal binding site [ion binding]; metal-binding site 314260006805 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 314260006806 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 314260006807 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 314260006808 SEC-C motif; Region: SEC-C; pfam02810 314260006809 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 314260006810 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 314260006811 dimer interface [polypeptide binding]; other site 314260006812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 314260006813 catalytic residue [active] 314260006814 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 314260006815 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 314260006816 Walker A/P-loop; other site 314260006817 ATP binding site [chemical binding]; other site 314260006818 Q-loop/lid; other site 314260006819 ABC transporter signature motif; other site 314260006820 Walker B; other site 314260006821 D-loop; other site 314260006822 H-loop/switch region; other site 314260006823 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 314260006824 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 314260006825 FtsX-like permease family; Region: FtsX; pfam02687 314260006826 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 314260006827 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 314260006828 putative active site [active] 314260006829 putative metal binding site [ion binding]; other site 314260006830 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 314260006831 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 314260006832 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 314260006833 TrkA-N domain; Region: TrkA_N; pfam02254 314260006834 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 314260006835 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 314260006836 hinge; other site 314260006837 active site 314260006838 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 314260006839 TIGR02300 family protein; Region: FYDLN_acid 314260006840 peptide chain release factor 2; Provisional; Region: PRK07342 314260006841 This domain is found in peptide chain release factors; Region: PCRF; smart00937 314260006842 RF-1 domain; Region: RF-1; pfam00472 314260006843 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 314260006844 Transglycosylase; Region: Transgly; pfam00912 314260006845 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 314260006846 AsmA family; Region: AsmA; pfam05170 314260006847 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 314260006848 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 314260006849 dimer interface [polypeptide binding]; other site 314260006850 putative tRNA-binding site [nucleotide binding]; other site 314260006851 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 314260006852 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 314260006853 dimer interface [polypeptide binding]; other site 314260006854 acyl-activating enzyme (AAE) consensus motif; other site 314260006855 putative active site [active] 314260006856 AMP binding site [chemical binding]; other site 314260006857 putative CoA binding site [chemical binding]; other site 314260006858 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 314260006859 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 314260006860 active site 314260006861 NTP binding site [chemical binding]; other site 314260006862 metal binding triad [ion binding]; metal-binding site 314260006863 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 314260006864 putative active site [active] 314260006865 putative CoA binding site [chemical binding]; other site 314260006866 nudix motif; other site 314260006867 metal binding site [ion binding]; metal-binding site 314260006868 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 314260006869 protease 4; Provisional; Region: PRK10949 314260006870 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 314260006871 tandem repeat interface [polypeptide binding]; other site 314260006872 oligomer interface [polypeptide binding]; other site 314260006873 active site residues [active] 314260006874 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 314260006875 tandem repeat interface [polypeptide binding]; other site 314260006876 oligomer interface [polypeptide binding]; other site 314260006877 active site residues [active] 314260006878 MoxR-like ATPases [General function prediction only]; Region: COG0714 314260006879 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 314260006880 Walker A motif; other site 314260006881 ATP binding site [chemical binding]; other site 314260006882 Walker B motif; other site 314260006883 arginine finger; other site 314260006884 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 314260006885 Protein of unknown function DUF58; Region: DUF58; pfam01882 314260006886 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 314260006887 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 314260006888 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 314260006889 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 314260006890 active site 314260006891 DNA binding site [nucleotide binding] 314260006892 Int/Topo IB signature motif; other site 314260006893 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314260006894 Cation efflux family; Region: Cation_efflux; cl00316 314260006895 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 314260006896 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 314260006897 substrate binding pocket [chemical binding]; other site 314260006898 chain length determination region; other site 314260006899 substrate-Mg2+ binding site; other site 314260006900 catalytic residues [active] 314260006901 aspartate-rich region 1; other site 314260006902 active site lid residues [active] 314260006903 aspartate-rich region 2; other site 314260006904 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 314260006905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 314260006906 Surface antigen; Region: Bac_surface_Ag; pfam01103 314260006907 Family of unknown function (DUF490); Region: DUF490; pfam04357 314260006908 Family of unknown function (DUF490); Region: DUF490; pfam04357 314260006909 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 314260006910 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 314260006911 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 314260006912 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 314260006913 active site 314260006914 dimer interface [polypeptide binding]; other site 314260006915 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 314260006916 Ligand Binding Site [chemical binding]; other site 314260006917 Molecular Tunnel; other site 314260006918 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 314260006919 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 314260006920 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 314260006921 catalytic site [active] 314260006922 subunit interface [polypeptide binding]; other site 314260006923 Yqey-like protein; Region: YqeY; pfam09424 314260006924 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 314260006925 DNA primase, catalytic core; Region: dnaG; TIGR01391 314260006926 CHC2 zinc finger; Region: zf-CHC2; cl17510 314260006927 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 314260006928 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 314260006929 active site 314260006930 metal binding site [ion binding]; metal-binding site 314260006931 interdomain interaction site; other site 314260006932 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 314260006933 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 314260006934 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 314260006935 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 314260006936 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 314260006937 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 314260006938 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 314260006939 DNA binding residues [nucleotide binding] 314260006940 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 314260006941 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 314260006942 amidase catalytic site [active] 314260006943 Zn binding residues [ion binding]; other site 314260006944 substrate binding site [chemical binding]; other site 314260006945 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 314260006946 EamA-like transporter family; Region: EamA; pfam00892 314260006947 EamA-like transporter family; Region: EamA; pfam00892 314260006948 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 314260006949 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 314260006950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260006951 Walker A/P-loop; other site 314260006952 ATP binding site [chemical binding]; other site 314260006953 Q-loop/lid; other site 314260006954 ABC transporter signature motif; other site 314260006955 Walker B; other site 314260006956 D-loop; other site 314260006957 H-loop/switch region; other site 314260006958 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 314260006959 putative acyl-acceptor binding pocket; other site 314260006960 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 314260006961 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 314260006962 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 314260006963 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 314260006964 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 314260006965 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 314260006966 putative acyl-acceptor binding pocket; other site 314260006967 mercuric reductase; Validated; Region: PRK06370 314260006968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 314260006969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260006970 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 314260006971 Uncharacterized conserved protein [Function unknown]; Region: COG0398 314260006972 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314260006973 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 314260006974 Ribonuclease P; Region: Ribonuclease_P; pfam00825 314260006975 membrane protein insertase; Provisional; Region: PRK01318 314260006976 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 314260006977 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 314260006978 G1 box; other site 314260006979 GTP/Mg2+ binding site [chemical binding]; other site 314260006980 Switch I region; other site 314260006981 G2 box; other site 314260006982 G3 box; other site 314260006983 Switch II region; other site 314260006984 G4 box; other site 314260006985 G5 box; other site 314260006986 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 314260006987 FAD binding domain; Region: FAD_binding_4; pfam01565 314260006988 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 314260006989 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 314260006990 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 314260006991 Preprotein translocase SecG subunit; Region: SecG; pfam03840 314260006992 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 314260006993 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 314260006994 triosephosphate isomerase; Provisional; Region: PRK14565 314260006995 substrate binding site [chemical binding]; other site 314260006996 dimer interface [polypeptide binding]; other site 314260006997 catalytic triad [active] 314260006998 SurA N-terminal domain; Region: SurA_N_3; cl07813 314260006999 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 314260007000 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 314260007001 anthranilate synthase component I; Provisional; Region: PRK13573 314260007002 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 314260007003 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 314260007004 TadE-like protein; Region: TadE; pfam07811 314260007005 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 314260007006 NodB motif; other site 314260007007 putative active site [active] 314260007008 putative catalytic site [active] 314260007009 Zn binding site [ion binding]; other site 314260007010 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 314260007011 Glutamine amidotransferase class-I; Region: GATase; pfam00117 314260007012 glutamine binding [chemical binding]; other site 314260007013 catalytic triad [active] 314260007014 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 314260007015 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 314260007016 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 314260007017 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 314260007018 active site 314260007019 ribulose/triose binding site [chemical binding]; other site 314260007020 phosphate binding site [ion binding]; other site 314260007021 substrate (anthranilate) binding pocket [chemical binding]; other site 314260007022 product (indole) binding pocket [chemical binding]; other site 314260007023 LexA repressor; Validated; Region: PRK00215 314260007024 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 314260007025 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 314260007026 Catalytic site [active] 314260007027 aspartate semialdehyde dehydrogenase; Region: PLN02383 314260007028 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 314260007029 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 314260007030 Beta-lactamase; Region: Beta-lactamase; pfam00144 314260007031 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260007032 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 314260007033 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 314260007034 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 314260007035 Ligand binding site [chemical binding]; other site 314260007036 Electron transfer flavoprotein domain; Region: ETF; pfam01012 314260007037 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 314260007038 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 314260007039 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 314260007040 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 314260007041 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 314260007042 putative MPT binding site; other site 314260007043 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 314260007044 NADH dehydrogenase subunit D; Validated; Region: PRK06075 314260007045 Uncharacterized conserved protein [Function unknown]; Region: COG3791 314260007046 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 314260007047 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 314260007048 NADH dehydrogenase subunit B; Validated; Region: PRK06411 314260007049 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 314260007050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260007051 HAMP domain; Region: HAMP; pfam00672 314260007052 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 314260007053 dimer interface [polypeptide binding]; other site 314260007054 phosphorylation site [posttranslational modification] 314260007055 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 314260007056 ATP binding site [chemical binding]; other site 314260007057 Mg2+ binding site [ion binding]; other site 314260007058 G-X-G motif; other site 314260007059 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 314260007060 active site 314260007061 Response regulator receiver domain; Region: Response_reg; pfam00072 314260007062 phosphorylation site [posttranslational modification] 314260007063 intermolecular recognition site; other site 314260007064 dimerization interface [polypeptide binding]; other site 314260007065 Response regulator receiver domain; Region: Response_reg; pfam00072 314260007066 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 314260007067 active site 314260007068 phosphorylation site [posttranslational modification] 314260007069 intermolecular recognition site; other site 314260007070 Response regulator receiver domain; Region: Response_reg; pfam00072 314260007071 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 314260007072 active site 314260007073 phosphorylation site [posttranslational modification] 314260007074 intermolecular recognition site; other site 314260007075 dimerization interface [polypeptide binding]; other site 314260007076 Response regulator receiver domain; Region: Response_reg; pfam00072 314260007077 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 314260007078 active site 314260007079 phosphorylation site [posttranslational modification] 314260007080 intermolecular recognition site; other site 314260007081 dimerization interface [polypeptide binding]; other site 314260007082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260007083 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 314260007084 dimer interface [polypeptide binding]; other site 314260007085 phosphorylation site [posttranslational modification] 314260007086 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 314260007087 ATP binding site [chemical binding]; other site 314260007088 Mg2+ binding site [ion binding]; other site 314260007089 G-X-G motif; other site 314260007090 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260007091 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260007092 N-terminal plug; other site 314260007093 ligand-binding site [chemical binding]; other site 314260007094 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 314260007095 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 314260007096 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 314260007097 dimer interface [polypeptide binding]; other site 314260007098 phosphorylation site [posttranslational modification] 314260007099 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 314260007100 ATP binding site [chemical binding]; other site 314260007101 Mg2+ binding site [ion binding]; other site 314260007102 G-X-G motif; other site 314260007103 Response regulator receiver domain; Region: Response_reg; pfam00072 314260007104 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 314260007105 active site 314260007106 phosphorylation site [posttranslational modification] 314260007107 intermolecular recognition site; other site 314260007108 dimerization interface [polypeptide binding]; other site 314260007109 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 314260007110 putative transporter; Provisional; Region: PRK10484 314260007111 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 314260007112 Na binding site [ion binding]; other site 314260007113 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 314260007114 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 314260007115 active site 314260007116 homotetramer interface [polypeptide binding]; other site 314260007117 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 314260007118 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 314260007119 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 314260007120 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 314260007121 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314260007122 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 314260007123 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 314260007124 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 314260007125 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 314260007126 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 314260007127 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 314260007128 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 314260007129 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 314260007130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260007131 Walker A/P-loop; other site 314260007132 ATP binding site [chemical binding]; other site 314260007133 Q-loop/lid; other site 314260007134 ABC transporter signature motif; other site 314260007135 Walker B; other site 314260007136 D-loop; other site 314260007137 H-loop/switch region; other site 314260007138 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 314260007139 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 314260007140 Walker A/P-loop; other site 314260007141 ATP binding site [chemical binding]; other site 314260007142 Q-loop/lid; other site 314260007143 ABC transporter signature motif; other site 314260007144 Walker B; other site 314260007145 D-loop; other site 314260007146 H-loop/switch region; other site 314260007147 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 314260007148 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 314260007149 ligand binding site [chemical binding]; other site 314260007150 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 314260007151 non-specific DNA interactions [nucleotide binding]; other site 314260007152 DNA binding site [nucleotide binding] 314260007153 sequence specific DNA binding site [nucleotide binding]; other site 314260007154 putative cAMP binding site [chemical binding]; other site 314260007155 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 314260007156 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 314260007157 active site 314260007158 phosphorylation site [posttranslational modification] 314260007159 intermolecular recognition site; other site 314260007160 dimerization interface [polypeptide binding]; other site 314260007161 Outer membrane efflux protein; Region: OEP; pfam02321 314260007162 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 314260007163 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260007164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 314260007165 ABC transporter; Region: ABC_tran; pfam00005 314260007166 Q-loop/lid; other site 314260007167 ABC transporter signature motif; other site 314260007168 Walker B; other site 314260007169 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 314260007170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260007171 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 314260007172 dimerization interface [polypeptide binding]; other site 314260007173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 314260007174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 314260007175 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 314260007176 dimerization interface [polypeptide binding]; other site 314260007177 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 314260007178 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 314260007179 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 314260007180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 314260007181 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 314260007182 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 314260007183 Active Sites [active] 314260007184 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 314260007185 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 314260007186 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 314260007187 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 314260007188 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 314260007189 Walker A/P-loop; other site 314260007190 ATP binding site [chemical binding]; other site 314260007191 Q-loop/lid; other site 314260007192 ABC transporter signature motif; other site 314260007193 Walker B; other site 314260007194 D-loop; other site 314260007195 H-loop/switch region; other site 314260007196 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 314260007197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 314260007198 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 314260007199 ABC-ATPase subunit interface; other site 314260007200 putative PBP binding loops; other site 314260007201 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 314260007202 ABC-ATPase subunit interface; other site 314260007203 putative PBP binding loops; other site 314260007204 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 314260007205 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 314260007206 Uncharacterized conserved protein [Function unknown]; Region: COG2898 314260007207 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 314260007208 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 314260007209 cationic amino acid transport permease; Region: 2A0303; TIGR00906 314260007210 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 314260007211 NMT1-like family; Region: NMT1_2; pfam13379 314260007212 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 314260007213 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 314260007214 active site 314260007215 phosphorylation site [posttranslational modification] 314260007216 intermolecular recognition site; other site 314260007217 dimerization interface [polypeptide binding]; other site 314260007218 ANTAR domain; Region: ANTAR; pfam03861 314260007219 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 314260007220 active site 314260007221 SAM binding site [chemical binding]; other site 314260007222 homodimer interface [polypeptide binding]; other site 314260007223 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 314260007224 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 314260007225 molybdopterin cofactor binding site; other site 314260007226 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 314260007227 molybdopterin cofactor binding site; other site 314260007228 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314260007229 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 314260007230 [2Fe-2S] cluster binding site [ion binding]; other site 314260007231 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 314260007232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 314260007233 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314260007234 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 314260007235 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 314260007236 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 314260007237 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 314260007238 GTP binding site; other site 314260007239 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 314260007240 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 314260007241 dimer interface [polypeptide binding]; other site 314260007242 putative functional site; other site 314260007243 putative MPT binding site; other site 314260007244 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 314260007245 active site 314260007246 Protein kinase domain; Region: Pkinase; pfam00069 314260007247 Catalytic domain of Protein Kinases; Region: PKc; cd00180 314260007248 active site 314260007249 ATP binding site [chemical binding]; other site 314260007250 substrate binding site [chemical binding]; other site 314260007251 activation loop (A-loop); other site 314260007252 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 314260007253 putative substrate translocation pore; other site 314260007254 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 314260007255 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 314260007256 MPT binding site; other site 314260007257 trimer interface [polypeptide binding]; other site 314260007258 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 314260007259 MoaE homodimer interface [polypeptide binding]; other site 314260007260 MoaD interaction [polypeptide binding]; other site 314260007261 active site residues [active] 314260007262 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 314260007263 MoaE interaction surface [polypeptide binding]; other site 314260007264 MoeB interaction surface [polypeptide binding]; other site 314260007265 thiocarboxylated glycine; other site 314260007266 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 314260007267 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 314260007268 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 314260007269 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 314260007270 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 314260007271 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 314260007272 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 314260007273 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260007274 N-terminal plug; other site 314260007275 ligand-binding site [chemical binding]; other site 314260007276 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 314260007277 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260007278 N-terminal plug; other site 314260007279 ligand-binding site [chemical binding]; other site 314260007280 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 314260007281 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 314260007282 Walker A/P-loop; other site 314260007283 ATP binding site [chemical binding]; other site 314260007284 Q-loop/lid; other site 314260007285 ABC transporter signature motif; other site 314260007286 Walker B; other site 314260007287 D-loop; other site 314260007288 H-loop/switch region; other site 314260007289 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 314260007290 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 314260007291 ABC-ATPase subunit interface; other site 314260007292 dimer interface [polypeptide binding]; other site 314260007293 putative PBP binding regions; other site 314260007294 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 314260007295 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 314260007296 intersubunit interface [polypeptide binding]; other site 314260007297 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 314260007298 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 314260007299 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 314260007300 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 314260007301 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 314260007302 Walker A/P-loop; other site 314260007303 ATP binding site [chemical binding]; other site 314260007304 Q-loop/lid; other site 314260007305 ABC transporter signature motif; other site 314260007306 Walker B; other site 314260007307 D-loop; other site 314260007308 H-loop/switch region; other site 314260007309 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 314260007310 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 314260007311 N-terminal plug; other site 314260007312 ligand-binding site [chemical binding]; other site 314260007313 Transcriptional regulator; Region: Rrf2; pfam02082 314260007314 Rrf2 family protein; Region: rrf2_super; TIGR00738 314260007315 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 314260007316 MerC mercury resistance protein; Region: MerC; pfam03203 314260007317 Peptidase S46; Region: Peptidase_S46; pfam10459 314260007318 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 314260007319 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 314260007320 metal binding site 2 [ion binding]; metal-binding site 314260007321 putative DNA binding helix; other site 314260007322 metal binding site 1 [ion binding]; metal-binding site 314260007323 dimer interface [polypeptide binding]; other site 314260007324 structural Zn2+ binding site [ion binding]; other site 314260007325 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 314260007326 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 314260007327 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 314260007328 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 314260007329 putative active site [active] 314260007330 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 314260007331 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 314260007332 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260007333 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260007334 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260007335 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 314260007336 putative homodimer interface [polypeptide binding]; other site 314260007337 putative homotetramer interface [polypeptide binding]; other site 314260007338 putative allosteric switch controlling residues; other site 314260007339 putative metal binding site [ion binding]; other site 314260007340 putative homodimer-homodimer interface [polypeptide binding]; other site 314260007341 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 314260007342 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 314260007343 Multicopper oxidase; Region: Cu-oxidase; pfam00394 314260007344 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 314260007345 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 314260007346 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 314260007347 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 314260007348 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 314260007349 Soluble P-type ATPase [General function prediction only]; Region: COG4087 314260007350 CopC domain; Region: CopC; pfam04234 314260007351 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 314260007352 short chain dehydrogenase; Provisional; Region: PRK07109 314260007353 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 314260007354 putative NAD(P) binding site [chemical binding]; other site 314260007355 active site 314260007356 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 314260007357 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 314260007358 RES domain; Region: RES; pfam08808 314260007359 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 314260007360 putative metal binding site [ion binding]; other site 314260007361 putative homodimer interface [polypeptide binding]; other site 314260007362 putative homotetramer interface [polypeptide binding]; other site 314260007363 putative homodimer-homodimer interface [polypeptide binding]; other site 314260007364 putative allosteric switch controlling residues; other site 314260007365 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314260007366 Predicted membrane protein [Function unknown]; Region: COG1971 314260007367 Domain of unknown function DUF; Region: DUF204; pfam02659 314260007368 Domain of unknown function DUF; Region: DUF204; pfam02659 314260007369 H+ Antiporter protein; Region: 2A0121; TIGR00900 314260007370 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 314260007371 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 314260007372 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 314260007373 carboxyltransferase (CT) interaction site; other site 314260007374 biotinylation site [posttranslational modification]; other site 314260007375 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260007376 RES domain; Region: RES; smart00953 314260007377 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 314260007378 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 314260007379 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 314260007380 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 314260007381 Outer membrane efflux protein; Region: OEP; pfam02321 314260007382 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 314260007383 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260007384 Protein export membrane protein; Region: SecD_SecF; cl14618 314260007385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260007386 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 314260007387 active site 314260007388 phosphorylation site [posttranslational modification] 314260007389 intermolecular recognition site; other site 314260007390 dimerization interface [polypeptide binding]; other site 314260007391 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 314260007392 DNA binding site [nucleotide binding] 314260007393 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 314260007394 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 314260007395 dimer interface [polypeptide binding]; other site 314260007396 phosphorylation site [posttranslational modification] 314260007397 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 314260007398 ATP binding site [chemical binding]; other site 314260007399 Mg2+ binding site [ion binding]; other site 314260007400 G-X-G motif; other site 314260007401 Putative phosphatase (DUF442); Region: DUF442; cl17385 314260007402 Cation efflux family; Region: Cation_efflux; cl00316 314260007403 Cation efflux family; Region: Cation_efflux; cl00316 314260007404 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 314260007405 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 314260007406 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 314260007407 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 314260007408 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314260007409 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314260007410 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 314260007411 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 314260007412 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 314260007413 DNA binding residues [nucleotide binding] 314260007414 dimer interface [polypeptide binding]; other site 314260007415 putative metal binding site [ion binding]; other site 314260007416 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 314260007417 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 314260007418 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 314260007419 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 314260007420 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 314260007421 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260007422 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260007423 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 314260007424 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 314260007425 Cation efflux family; Region: Cation_efflux; cl00316 314260007426 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 314260007427 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 314260007428 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 314260007429 S-adenosylmethionine binding site [chemical binding]; other site 314260007430 Winged helix-turn helix; Region: HTH_29; pfam13551 314260007431 Homeodomain-like domain; Region: HTH_32; pfam13565 314260007432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 314260007433 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 314260007434 NAD(P) binding site [chemical binding]; other site 314260007435 active site 314260007436 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 314260007437 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 314260007438 active site 314260007439 Predicted membrane protein [Function unknown]; Region: COG2510 314260007440 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 314260007441 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 314260007442 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 314260007443 HlyD family secretion protein; Region: HlyD_3; pfam13437 314260007444 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 314260007445 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 314260007446 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 314260007447 active site 314260007448 phosphorylation site [posttranslational modification] 314260007449 intermolecular recognition site; other site 314260007450 dimerization interface [polypeptide binding]; other site 314260007451 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 314260007452 DNA binding site [nucleotide binding] 314260007453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 314260007454 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 314260007455 ATP binding site [chemical binding]; other site 314260007456 G-X-G motif; other site