-- dump date 20140619_135807 -- class Genbank::misc_feature -- table misc_feature_note -- id note 351348000001 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 351348000002 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 351348000003 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 351348000004 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 351348000005 Ligand Binding Site [chemical binding]; other site 351348000006 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351348000007 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348000008 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 351348000009 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 351348000010 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348000011 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348000012 DNA binding residues [nucleotide binding] 351348000013 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000014 Integrase core domain; Region: rve; pfam00665 351348000015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000016 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348000017 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348000018 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 351348000019 Walker A motif; other site 351348000020 ATP binding site [chemical binding]; other site 351348000021 Walker B motif; other site 351348000022 arginine finger; other site 351348000023 PilZ domain; Region: PilZ; pfam07238 351348000024 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348000025 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348000026 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 351348000027 Walker A motif; other site 351348000028 ATP binding site [chemical binding]; other site 351348000029 Walker B motif; other site 351348000030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000031 Integrase core domain; Region: rve; pfam00665 351348000032 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 351348000033 putative active site [active] 351348000034 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 351348000035 putative hydrolase; Provisional; Region: PRK02113 351348000036 Guanylate kinase; Region: Guanylate_kin; pfam00625 351348000037 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348000038 active site 351348000039 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351348000040 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 351348000041 putative substrate translocation pore; other site 351348000042 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 351348000043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348000044 Walker A/P-loop; other site 351348000045 ATP binding site [chemical binding]; other site 351348000046 Q-loop/lid; other site 351348000047 ABC transporter signature motif; other site 351348000048 Walker B; other site 351348000049 D-loop; other site 351348000050 H-loop/switch region; other site 351348000051 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 351348000052 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348000053 Walker A/P-loop; other site 351348000054 ATP binding site [chemical binding]; other site 351348000055 Q-loop/lid; other site 351348000056 ABC transporter signature motif; other site 351348000057 Walker B; other site 351348000058 D-loop; other site 351348000059 H-loop/switch region; other site 351348000060 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351348000061 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 351348000062 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 351348000063 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 351348000064 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 351348000065 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 351348000066 Amidohydrolase; Region: Amidohydro_5; pfam13594 351348000067 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 351348000068 active site 351348000069 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 351348000070 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348000071 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 351348000072 dimer interface [polypeptide binding]; other site 351348000073 conserved gate region; other site 351348000074 putative PBP binding loops; other site 351348000075 ABC-ATPase subunit interface; other site 351348000076 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 351348000077 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348000078 Walker A/P-loop; other site 351348000079 ATP binding site [chemical binding]; other site 351348000080 Q-loop/lid; other site 351348000081 ABC transporter signature motif; other site 351348000082 Walker B; other site 351348000083 D-loop; other site 351348000084 H-loop/switch region; other site 351348000085 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348000086 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348000087 substrate binding pocket [chemical binding]; other site 351348000088 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348000089 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 351348000090 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348000091 catalytic residues [active] 351348000092 catalytic nucleophile [active] 351348000093 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348000094 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348000095 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348000096 Synaptic Site I dimer interface [polypeptide binding]; other site 351348000097 DNA binding site [nucleotide binding] 351348000098 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 351348000099 DNA-binding interface [nucleotide binding]; DNA binding site 351348000100 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 351348000101 Catalytic site; other site 351348000102 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 351348000103 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 351348000104 active site 351348000105 catalytic residues [active] 351348000106 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 351348000107 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 351348000108 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 351348000109 active site 351348000110 catalytic site [active] 351348000111 substrate binding site [chemical binding]; other site 351348000112 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348000113 active site 351348000114 metal binding site [ion binding]; metal-binding site 351348000115 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 351348000116 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 351348000117 active site 351348000118 DNA binding site [nucleotide binding] 351348000119 Int/Topo IB signature motif; other site 351348000120 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 351348000121 ParB-like nuclease domain; Region: ParB; smart00470 351348000122 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 351348000123 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 351348000124 P-loop; other site 351348000125 Magnesium ion binding site [ion binding]; other site 351348000126 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 351348000127 Magnesium ion binding site [ion binding]; other site 351348000128 Initiator Replication protein; Region: Rep_3; pfam01051 351348000129 Replicase family; Region: Replicase; pfam03090 351348000130 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 351348000131 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 351348000132 sequence-specific DNA binding site [nucleotide binding]; other site 351348000133 salt bridge; other site 351348000134 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 351348000135 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; cl00290 351348000136 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 351348000137 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 351348000138 Probable transposase; Region: OrfB_IS605; pfam01385 351348000139 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 351348000140 Transposase IS200 like; Region: Y1_Tnp; pfam01797 351348000141 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348000142 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 351348000143 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 351348000144 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348000145 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351348000146 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 351348000147 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 351348000148 active site 351348000149 interdomain interaction site; other site 351348000150 putative metal-binding site [ion binding]; other site 351348000151 nucleotide binding site [chemical binding]; other site 351348000152 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 351348000153 domain I; other site 351348000154 DNA binding groove [nucleotide binding] 351348000155 phosphate binding site [ion binding]; other site 351348000156 domain II; other site 351348000157 domain III; other site 351348000158 nucleotide binding site [chemical binding]; other site 351348000159 catalytic site [active] 351348000160 domain IV; other site 351348000161 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 351348000162 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 351348000163 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351348000164 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 351348000165 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 351348000166 Walker A motif; other site 351348000167 ATP binding site [chemical binding]; other site 351348000168 Walker B motif; other site 351348000169 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351348000170 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348000171 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351348000172 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351348000173 PilS N terminal; Region: PilS; pfam08805 351348000174 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 351348000175 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 351348000176 cell division protein MukB; Provisional; Region: mukB; PRK04863 351348000177 PemK-like protein; Region: PemK; cl00995 351348000178 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 351348000179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 351348000180 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 351348000181 Probable transposase; Region: OrfB_IS605; pfam01385 351348000182 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 351348000183 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348000184 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348000185 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 351348000186 Walker A motif; other site 351348000187 ATP binding site [chemical binding]; other site 351348000188 Walker B motif; other site 351348000189 arginine finger; other site 351348000190 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000191 Integrase core domain; Region: rve; pfam00665 351348000192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000193 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; cl00246 351348000194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351348000195 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 351348000196 non-specific DNA binding site [nucleotide binding]; other site 351348000197 salt bridge; other site 351348000198 sequence-specific DNA binding site [nucleotide binding]; other site 351348000199 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 351348000200 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 351348000201 ATP binding site [chemical binding]; other site 351348000202 putative Mg++ binding site [ion binding]; other site 351348000203 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 351348000204 DNA methylase; Region: N6_N4_Mtase; pfam01555 351348000205 DNA methylase; Region: N6_N4_Mtase; pfam01555 351348000206 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 351348000207 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 351348000208 active site 351348000209 Int/Topo IB signature motif; other site 351348000210 DNA binding site [nucleotide binding] 351348000211 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351348000212 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 351348000213 non-specific DNA binding site [nucleotide binding]; other site 351348000214 salt bridge; other site 351348000215 sequence-specific DNA binding site [nucleotide binding]; other site 351348000216 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 351348000217 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 351348000218 AAA domain; Region: AAA_12; pfam13087 351348000219 CHC2 zinc finger; Region: zf-CHC2; cl17510 351348000220 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 351348000221 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 351348000222 active site 351348000223 metal binding site [ion binding]; metal-binding site 351348000224 interdomain interaction site; other site 351348000225 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351348000226 Part of AAA domain; Region: AAA_19; pfam13245 351348000227 Family description; Region: UvrD_C_2; pfam13538 351348000228 Putative exonuclease, RdgC; Region: RdgC; cl01122 351348000229 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348000230 AAA-like domain; Region: AAA_10; pfam12846 351348000231 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 351348000232 S-adenosylmethionine binding site [chemical binding]; other site 351348000233 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 351348000234 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 351348000235 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 351348000236 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 351348000237 nucleotide binding region [chemical binding]; other site 351348000238 ATP-binding site [chemical binding]; other site 351348000239 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 351348000240 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348000241 catalytic residue [active] 351348000242 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 351348000243 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 351348000244 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 351348000245 PRTRC system protein D; Region: PRTRC_D; TIGR03739 351348000246 Mg binding site [ion binding]; other site 351348000247 nucleotide binding site [chemical binding]; other site 351348000248 putative protofilament interface [polypeptide binding]; other site 351348000249 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 351348000250 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 351348000251 Walker A motif; other site 351348000252 ATP binding site [chemical binding]; other site 351348000253 Walker B motif; other site 351348000254 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 351348000255 DHH family; Region: DHH; pfam01368 351348000256 DEAD-like helicases superfamily; Region: DEXDc; smart00487 351348000257 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 351348000258 ATP binding site [chemical binding]; other site 351348000259 putative Mg++ binding site [ion binding]; other site 351348000260 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 351348000261 nucleotide binding region [chemical binding]; other site 351348000262 ATP-binding site [chemical binding]; other site 351348000263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348000264 Coenzyme A binding pocket [chemical binding]; other site 351348000265 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 351348000266 AAA domain; Region: AAA_14; pfam13173 351348000267 AAA domain; Region: AAA_22; pfam13401 351348000268 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 351348000269 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 351348000270 cofactor binding site; other site 351348000271 DNA binding site [nucleotide binding] 351348000272 substrate interaction site [chemical binding]; other site 351348000273 ParB-like nuclease domain; Region: ParB; smart00470 351348000274 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 351348000275 PRTRC system protein B; Region: PRTRC_B; TIGR03737 351348000276 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 351348000277 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; cd01483 351348000278 ATP binding site [chemical binding]; other site 351348000279 endonuclease subunit; Provisional; Region: 46; PHA02562 351348000280 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]; Region: COG5270 351348000281 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 351348000282 Family description; Region: UvrD_C_2; pfam13538 351348000283 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 351348000284 non-specific DNA binding site [nucleotide binding]; other site 351348000285 salt bridge; other site 351348000286 sequence-specific DNA binding site [nucleotide binding]; other site 351348000287 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 351348000288 non-specific DNA binding site [nucleotide binding]; other site 351348000289 sequence-specific DNA binding site [nucleotide binding]; other site 351348000290 salt bridge; other site 351348000291 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 351348000292 Active Sites [active] 351348000293 aspartate aminotransferase; Provisional; Region: PRK07568 351348000294 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 351348000295 Nitronate monooxygenase; Region: NMO; pfam03060 351348000296 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 351348000297 FMN binding site [chemical binding]; other site 351348000298 substrate binding site [chemical binding]; other site 351348000299 putative catalytic residue [active] 351348000300 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 351348000301 active site 1 [active] 351348000302 dimer interface [polypeptide binding]; other site 351348000303 hexamer interface [polypeptide binding]; other site 351348000304 active site 2 [active] 351348000305 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 351348000306 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348000307 glutathionine S-transferase; Provisional; Region: PRK10542 351348000308 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 351348000309 N-terminal domain interface [polypeptide binding]; other site 351348000310 dimer interface [polypeptide binding]; other site 351348000311 substrate binding pocket (H-site) [chemical binding]; other site 351348000312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348000313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348000314 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 351348000315 putative effector binding pocket; other site 351348000316 dimerization interface [polypeptide binding]; other site 351348000317 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 351348000318 active site 2 [active] 351348000319 active site 1 [active] 351348000320 CHAD domain; Region: CHAD; pfam05235 351348000321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 351348000322 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 351348000323 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 351348000324 NAD(P) binding site [chemical binding]; other site 351348000325 homotetramer interface [polypeptide binding]; other site 351348000326 homodimer interface [polypeptide binding]; other site 351348000327 active site 351348000328 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 351348000329 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 351348000330 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 351348000331 pyruvate kinase; Provisional; Region: PRK14725 351348000332 domain interfaces; other site 351348000333 active site 351348000334 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351348000335 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 351348000336 P-loop; other site 351348000337 Magnesium ion binding site [ion binding]; other site 351348000338 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 351348000339 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 351348000340 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 351348000341 ligand binding site [chemical binding]; other site 351348000342 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348000343 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 351348000344 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 351348000345 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 351348000346 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 351348000347 Protein of unknown function (DUF1525); Region: DUF1525; pfam07511 351348000348 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 351348000349 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 351348000350 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 351348000351 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 351348000352 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 351348000353 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 351348000354 Protein of unknown function (DUF3487); Region: DUF3487; pfam11990 351348000355 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 351348000356 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 351348000357 Predicted membrane protein [Function unknown]; Region: COG2855 351348000358 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 351348000359 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 351348000360 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 351348000361 Protein of unknown function (DUF2859); Region: DUF2859; pfam11072 351348000362 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 351348000363 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348000364 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 351348000365 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 351348000366 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 351348000367 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 351348000368 plasmid-partitioning protein; Provisional; Region: PRK13698 351348000369 ParB-like nuclease domain; Region: ParBc; pfam02195 351348000370 plasmid-partitioning protein SopA; Provisional; Region: PRK13705 351348000371 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 351348000372 P-loop; other site 351348000373 Magnesium ion binding site [ion binding]; other site 351348000374 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 351348000375 Magnesium ion binding site [ion binding]; other site 351348000376 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 351348000377 Putative helicase; Region: TraI_2; pfam07514 351348000378 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 351348000379 HTH-like domain; Region: HTH_21; pfam13276 351348000380 Integrase core domain; Region: rve; pfam00665 351348000381 Integrase core domain; Region: rve_3; pfam13683 351348000382 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348000383 MULE transposase domain; Region: MULE; pfam10551 351348000384 Protein of unknown function (DUF229); Region: DUF229; pfam02995 351348000385 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 351348000386 DNA-binding interface [nucleotide binding]; DNA binding site 351348000387 Transposase; Region: HTH_Tnp_1; pfam01527 351348000388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000389 putative transposase OrfB; Reviewed; Region: PHA02517 351348000390 HTH-like domain; Region: HTH_21; pfam13276 351348000391 Integrase core domain; Region: rve; pfam00665 351348000392 Integrase core domain; Region: rve_3; pfam13683 351348000393 Nuclease-related domain; Region: NERD; pfam08378 351348000394 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351348000395 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 351348000396 active site 351348000397 DNA binding site [nucleotide binding] 351348000398 Int/Topo IB signature motif; other site 351348000399 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 351348000400 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 351348000401 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 351348000402 DNA binding site [nucleotide binding] 351348000403 dimer interface [polypeptide binding]; other site 351348000404 active site 351348000405 Int/Topo IB signature motif; other site 351348000406 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 351348000407 Ligand Binding Site [chemical binding]; other site 351348000408 Transposase; Region: HTH_Tnp_1; pfam01527 351348000409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000410 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 351348000411 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 351348000412 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 351348000413 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 351348000414 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351348000415 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 351348000416 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 351348000417 motif II; other site 351348000418 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 351348000419 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 351348000420 AAA domain; Region: AAA_14; pfam13173 351348000421 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 351348000422 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348000423 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 351348000424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 351348000425 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 351348000426 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 351348000427 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 351348000428 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351348000429 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 351348000430 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 351348000431 dimerization interface [polypeptide binding]; other site 351348000432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348000433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348000434 dimer interface [polypeptide binding]; other site 351348000435 putative CheW interface [polypeptide binding]; other site 351348000436 putative transposase OrfB; Reviewed; Region: PHA02517 351348000437 HTH-like domain; Region: HTH_21; pfam13276 351348000438 Integrase core domain; Region: rve; pfam00665 351348000439 Integrase core domain; Region: rve_3; pfam13683 351348000440 Transposase; Region: HTH_Tnp_1; pfam01527 351348000441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000442 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348000443 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348000444 catalytic residues [active] 351348000445 catalytic nucleophile [active] 351348000446 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348000447 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348000448 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348000449 Synaptic Site I dimer interface [polypeptide binding]; other site 351348000450 DNA binding site [nucleotide binding] 351348000451 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 351348000452 DNA-binding interface [nucleotide binding]; DNA binding site 351348000453 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 351348000454 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 351348000455 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 351348000456 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 351348000457 MULE transposase domain; Region: MULE; pfam10551 351348000458 Protein of unknown function (DUF229); Region: DUF229; pfam02995 351348000459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348000460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348000461 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 351348000462 dimerization interface [polypeptide binding]; other site 351348000463 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 351348000464 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 351348000465 homodimer interface [polypeptide binding]; other site 351348000466 ligand binding site [chemical binding]; other site 351348000467 NAD binding site [chemical binding]; other site 351348000468 catalytic site [active] 351348000469 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348000470 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 351348000471 dimer interface [polypeptide binding]; other site 351348000472 conserved gate region; other site 351348000473 putative PBP binding loops; other site 351348000474 ABC-ATPase subunit interface; other site 351348000475 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 351348000476 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 351348000477 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 351348000478 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348000479 Walker A/P-loop; other site 351348000480 ATP binding site [chemical binding]; other site 351348000481 Q-loop/lid; other site 351348000482 ABC transporter signature motif; other site 351348000483 Walker B; other site 351348000484 D-loop; other site 351348000485 H-loop/switch region; other site 351348000486 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 351348000487 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348000488 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 351348000489 dimer interface [polypeptide binding]; other site 351348000490 phosphorylation site [posttranslational modification] 351348000491 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 351348000492 ATP binding site [chemical binding]; other site 351348000493 Mg2+ binding site [ion binding]; other site 351348000494 G-X-G motif; other site 351348000495 Response regulator receiver domain; Region: Response_reg; pfam00072 351348000496 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 351348000497 active site 351348000498 phosphorylation site [posttranslational modification] 351348000499 intermolecular recognition site; other site 351348000500 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 351348000501 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 351348000502 active site 351348000503 DNA binding site [nucleotide binding] 351348000504 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 351348000505 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 351348000506 Catalytic site [active] 351348000507 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 351348000508 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 351348000509 DNA binding residues [nucleotide binding] 351348000510 dimer interface [polypeptide binding]; other site 351348000511 putative metal binding site [ion binding]; other site 351348000512 Heavy-metal-associated domain; Region: HMA; pfam00403 351348000513 metal-binding site [ion binding] 351348000514 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348000515 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348000516 AAA domain; Region: AAA_30; pfam13604 351348000517 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 351348000518 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 351348000519 putative mercuric reductase; Provisional; Region: PRK14694 351348000520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348000521 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348000522 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 351348000523 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 351348000524 metal-binding site [ion binding] 351348000525 putative mercuric transport protein; Provisional; Region: PRK13751 351348000526 putative transcriptional regulator MerR; Provisional; Region: PRK13752 351348000527 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 351348000528 DNA binding residues [nucleotide binding] 351348000529 dimer interface [polypeptide binding]; other site 351348000530 mercury binding site [ion binding]; other site 351348000531 PEP-CTERM motif; Region: VPEP; pfam07589 351348000532 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 351348000533 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 351348000534 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 351348000535 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 351348000536 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 351348000537 Int/Topo IB signature motif; other site 351348000538 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 351348000539 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 351348000540 active site 351348000541 DNA binding site [nucleotide binding] 351348000542 Int/Topo IB signature motif; other site 351348000543 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 351348000544 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 351348000545 Int/Topo IB signature motif; other site 351348000546 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 351348000547 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 351348000548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 351348000549 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 351348000550 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 351348000551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 351348000552 Transposase; Region: HTH_Tnp_1; pfam01527 351348000553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000554 Transposase; Region: HTH_Tnp_1; pfam01527 351348000555 HTH-like domain; Region: HTH_21; pfam13276 351348000556 Integrase core domain; Region: rve; pfam00665 351348000557 Integrase core domain; Region: rve_3; pfam13683 351348000558 CcmE; Region: CcmE; cl00994 351348000559 Transposase domain (DUF772); Region: DUF772; pfam05598 351348000560 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 351348000561 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 351348000562 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348000563 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 351348000564 active site 351348000565 catalytic residues [active] 351348000566 DNA binding site [nucleotide binding] 351348000567 Int/Topo IB signature motif; other site 351348000568 Putative phage integrase; Region: Phage_Integr_2; pfam13009 351348000569 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 351348000570 DNA binding site [nucleotide binding] 351348000571 active site 351348000572 Int/Topo IB signature motif; other site 351348000573 catalytic residues [active] 351348000574 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 351348000575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348000576 DNA-binding site [nucleotide binding]; DNA binding site 351348000577 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 351348000578 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348000579 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348000580 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 351348000581 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348000582 Walker A/P-loop; other site 351348000583 ATP binding site [chemical binding]; other site 351348000584 Q-loop/lid; other site 351348000585 ABC transporter signature motif; other site 351348000586 Walker B; other site 351348000587 D-loop; other site 351348000588 H-loop/switch region; other site 351348000589 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348000590 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 351348000591 dimer interface [polypeptide binding]; other site 351348000592 conserved gate region; other site 351348000593 putative PBP binding loops; other site 351348000594 ABC-ATPase subunit interface; other site 351348000595 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 351348000596 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 351348000597 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 351348000598 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 351348000599 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 351348000600 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348000601 Walker A/P-loop; other site 351348000602 ATP binding site [chemical binding]; other site 351348000603 Q-loop/lid; other site 351348000604 ABC transporter signature motif; other site 351348000605 Walker B; other site 351348000606 D-loop; other site 351348000607 H-loop/switch region; other site 351348000608 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 351348000609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348000610 Walker A/P-loop; other site 351348000611 ATP binding site [chemical binding]; other site 351348000612 Q-loop/lid; other site 351348000613 ABC transporter signature motif; other site 351348000614 Walker B; other site 351348000615 D-loop; other site 351348000616 H-loop/switch region; other site 351348000617 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 351348000618 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 351348000619 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 351348000620 active site 351348000621 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 351348000622 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348000623 active site 351348000624 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 351348000625 putative hydrolase; Provisional; Region: PRK02113 351348000626 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 351348000627 EamA-like transporter family; Region: EamA; cl17759 351348000628 EamA-like transporter family; Region: EamA; pfam00892 351348000629 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 351348000630 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 351348000631 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348000632 Transposase; Region: HTH_Tnp_1; pfam01527 351348000633 HTH-like domain; Region: HTH_21; pfam13276 351348000634 Integrase core domain; Region: rve; pfam00665 351348000635 Integrase core domain; Region: rve_3; pfam13683 351348000636 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 351348000637 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 351348000638 Toprim domain; Region: Toprim_3; pfam13362 351348000639 active site 351348000640 metal binding site [ion binding]; metal-binding site 351348000641 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 351348000642 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 351348000643 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 351348000644 metal ion-dependent adhesion site (MIDAS); other site 351348000645 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 351348000646 WGR domain; Region: WGR; cl01581 351348000647 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 351348000648 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 351348000649 Walker A motif; other site 351348000650 ATP binding site [chemical binding]; other site 351348000651 Walker B motif; other site 351348000652 arginine finger; other site 351348000653 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 351348000654 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 351348000655 RecT family; Region: RecT; pfam03837 351348000656 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 351348000657 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 351348000658 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 351348000659 dimer interface [polypeptide binding]; other site 351348000660 ssDNA binding site [nucleotide binding]; other site 351348000661 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351348000662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000663 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 351348000664 DNA-binding interface [nucleotide binding]; DNA binding site 351348000665 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 351348000666 DNA methylase; Region: N6_N4_Mtase; pfam01555 351348000667 DNA methylase; Region: N6_N4_Mtase; pfam01555 351348000668 DEAD/DEAH box helicase; Region: DEAD; pfam00270 351348000669 ATP binding site [chemical binding]; other site 351348000670 putative Mg++ binding site [ion binding]; other site 351348000671 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 351348000672 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 351348000673 putative transposase OrfB; Reviewed; Region: PHA02517 351348000674 HTH-like domain; Region: HTH_21; pfam13276 351348000675 Integrase core domain; Region: rve; pfam00665 351348000676 Integrase core domain; Region: rve_3; pfam13683 351348000677 Transposase; Region: HTH_Tnp_1; pfam01527 351348000678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348000679 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 351348000680 nucleotide binding region [chemical binding]; other site 351348000681 ATP-binding site [chemical binding]; other site 351348000682 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 351348000683 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348000684 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 351348000685 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 351348000686 ATP binding site [chemical binding]; other site 351348000687 putative Mg++ binding site [ion binding]; other site 351348000688 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 351348000689 active site 351348000690 metal binding site [ion binding]; metal-binding site 351348000691 Predicted transcriptional regulator [Transcription]; Region: COG2378 351348000692 WYL domain; Region: WYL; pfam13280 351348000693 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 351348000694 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 351348000695 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 351348000696 S-adenosylmethionine binding site [chemical binding]; other site 351348000697 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 351348000698 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 351348000699 catalytic motif [active] 351348000700 Catalytic residue [active] 351348000701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348000702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348000703 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 351348000704 putative substrate binding pocket [chemical binding]; other site 351348000705 putative dimerization interface [polypeptide binding]; other site 351348000706 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 351348000707 classical (c) SDRs; Region: SDR_c; cd05233 351348000708 NAD(P) binding site [chemical binding]; other site 351348000709 active site 351348000710 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 351348000711 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 351348000712 potential catalytic triad [active] 351348000713 conserved cys residue [active] 351348000714 PEP-CTERM motif; Region: VPEP; pfam07589 351348000715 DnaA N-terminal domain; Region: DnaA_N; pfam11638 351348000716 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 351348000717 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 351348000718 Walker A motif; other site 351348000719 ATP binding site [chemical binding]; other site 351348000720 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 351348000721 Walker B motif; other site 351348000722 arginine finger; other site 351348000723 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 351348000724 DnaA box-binding interface [nucleotide binding]; other site 351348000725 DNA polymerase III subunit beta; Validated; Region: PRK05643 351348000726 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 351348000727 putative DNA binding surface [nucleotide binding]; other site 351348000728 dimer interface [polypeptide binding]; other site 351348000729 beta-clamp/clamp loader binding surface; other site 351348000730 beta-clamp/translesion DNA polymerase binding surface; other site 351348000731 ABC1 family; Region: ABC1; cl17513 351348000732 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351348000733 recombination protein F; Reviewed; Region: recF; PRK00064 351348000734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348000735 Walker A/P-loop; other site 351348000736 ATP binding site [chemical binding]; other site 351348000737 Q-loop/lid; other site 351348000738 Walker B; other site 351348000739 D-loop; other site 351348000740 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348000741 ABC transporter signature motif; other site 351348000742 Walker B; other site 351348000743 D-loop; other site 351348000744 H-loop/switch region; other site 351348000745 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 351348000746 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 351348000747 Mg2+ binding site [ion binding]; other site 351348000748 G-X-G motif; other site 351348000749 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 351348000750 anchoring element; other site 351348000751 dimer interface [polypeptide binding]; other site 351348000752 ATP binding site [chemical binding]; other site 351348000753 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 351348000754 active site 351348000755 putative metal-binding site [ion binding]; other site 351348000756 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 351348000757 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 351348000758 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 351348000759 inhibitor-cofactor binding pocket; inhibition site 351348000760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348000761 catalytic residue [active] 351348000762 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 351348000763 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351348000764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348000765 Walker A/P-loop; other site 351348000766 ATP binding site [chemical binding]; other site 351348000767 Q-loop/lid; other site 351348000768 ABC transporter signature motif; other site 351348000769 Walker B; other site 351348000770 D-loop; other site 351348000771 H-loop/switch region; other site 351348000772 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351348000773 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 351348000774 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 351348000775 Walker A/P-loop; other site 351348000776 ATP binding site [chemical binding]; other site 351348000777 Q-loop/lid; other site 351348000778 ABC transporter signature motif; other site 351348000779 Walker B; other site 351348000780 D-loop; other site 351348000781 H-loop/switch region; other site 351348000782 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 351348000783 AAA domain; Region: AAA_30; pfam13604 351348000784 Family description; Region: UvrD_C_2; pfam13538 351348000785 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 351348000786 Family description; Region: UvrD_C_2; pfam13538 351348000787 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 351348000788 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 351348000789 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 351348000790 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 351348000791 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 351348000792 DEAD_2; Region: DEAD_2; pfam06733 351348000793 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 351348000794 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 351348000795 heme-binding site [chemical binding]; other site 351348000796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348000797 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348000798 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 351348000799 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351348000800 Walker A/P-loop; other site 351348000801 ATP binding site [chemical binding]; other site 351348000802 Q-loop/lid; other site 351348000803 ABC transporter signature motif; other site 351348000804 Walker B; other site 351348000805 D-loop; other site 351348000806 H-loop/switch region; other site 351348000807 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351348000808 Walker A/P-loop; other site 351348000809 ATP binding site [chemical binding]; other site 351348000810 Q-loop/lid; other site 351348000811 ABC transporter signature motif; other site 351348000812 Walker B; other site 351348000813 D-loop; other site 351348000814 H-loop/switch region; other site 351348000815 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 351348000816 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351348000817 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 351348000818 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 351348000819 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351348000820 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351348000821 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 351348000822 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351348000823 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 351348000824 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 351348000825 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 351348000826 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 351348000827 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348000828 Walker A motif; other site 351348000829 ATP binding site [chemical binding]; other site 351348000830 Walker B motif; other site 351348000831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348000832 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 351348000833 Integrase core domain; Region: rve; pfam00665 351348000834 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 351348000835 Protein of unknown function (DUF524); Region: DUF524; pfam04411 351348000836 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348000837 LabA_like proteins; Region: LabA_like; cd06167 351348000838 Uncharacterized conserved protein [Function unknown]; Region: COG1432 351348000839 putative metal binding site [ion binding]; other site 351348000840 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 351348000841 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348000842 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348000843 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351348000844 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 351348000845 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 351348000846 S-adenosylmethionine binding site [chemical binding]; other site 351348000847 S-type Pyocin; Region: Pyocin_S; pfam06958 351348000848 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 351348000849 active site 351348000850 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 351348000851 RNAase interaction site [polypeptide binding]; other site 351348000852 HIRAN domain; Region: HIRAN; pfam08797 351348000853 HipA-like C-terminal domain; Region: HipA_C; pfam07804 351348000854 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 351348000855 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 351348000856 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 351348000857 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 351348000858 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 351348000859 dimer interface [polypeptide binding]; other site 351348000860 motif 1; other site 351348000861 active site 351348000862 motif 2; other site 351348000863 motif 3; other site 351348000864 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 351348000865 TrkA-N domain; Region: TrkA_N; pfam02254 351348000866 TrkA-C domain; Region: TrkA_C; pfam02080 351348000867 TrkA-N domain; Region: TrkA_N; pfam02254 351348000868 TrkA-C domain; Region: TrkA_C; pfam02080 351348000869 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 351348000870 putative RNA binding site [nucleotide binding]; other site 351348000871 16S rRNA methyltransferase B; Provisional; Region: PRK10901 351348000872 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 351348000873 S-adenosylmethionine binding site [chemical binding]; other site 351348000874 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 351348000875 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 351348000876 putative active site [active] 351348000877 substrate binding site [chemical binding]; other site 351348000878 putative cosubstrate binding site; other site 351348000879 catalytic site [active] 351348000880 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 351348000881 substrate binding site [chemical binding]; other site 351348000882 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 351348000883 active site 351348000884 catalytic residues [active] 351348000885 metal binding site [ion binding]; metal-binding site 351348000886 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 351348000887 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348000888 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 351348000889 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 351348000890 DNA protecting protein DprA; Region: dprA; TIGR00732 351348000891 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 351348000892 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 351348000893 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 351348000894 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 351348000895 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 351348000896 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 351348000897 shikimate binding site; other site 351348000898 NAD(P) binding site [chemical binding]; other site 351348000899 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351348000900 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 351348000901 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 351348000902 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348000903 ligand binding site [chemical binding]; other site 351348000904 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351348000905 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 351348000906 putative dimer interface [polypeptide binding]; other site 351348000907 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 351348000908 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 351348000909 trimer interface [polypeptide binding]; other site 351348000910 putative metal binding site [ion binding]; other site 351348000911 oligopeptidase A; Provisional; Region: PRK10911 351348000912 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 351348000913 active site 351348000914 Zn binding site [ion binding]; other site 351348000915 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 351348000916 Predicted permease [General function prediction only]; Region: COG2056 351348000917 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 351348000918 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 351348000919 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348000920 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348000921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348000922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348000923 metal binding site [ion binding]; metal-binding site 351348000924 active site 351348000925 I-site; other site 351348000926 Predicted membrane protein [Function unknown]; Region: COG2259 351348000927 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 351348000928 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 351348000929 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 351348000930 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 351348000931 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 351348000932 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351348000933 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351348000934 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 351348000935 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 351348000936 Subunit I/III interface [polypeptide binding]; other site 351348000937 D-pathway; other site 351348000938 Subunit I/VIIc interface [polypeptide binding]; other site 351348000939 Subunit I/IV interface [polypeptide binding]; other site 351348000940 Subunit I/II interface [polypeptide binding]; other site 351348000941 Low-spin heme (heme a) binding site [chemical binding]; other site 351348000942 Subunit I/VIIa interface [polypeptide binding]; other site 351348000943 Subunit I/VIa interface [polypeptide binding]; other site 351348000944 Dimer interface; other site 351348000945 Putative water exit pathway; other site 351348000946 Binuclear center (heme a3/CuB) [ion binding]; other site 351348000947 K-pathway; other site 351348000948 Subunit I/Vb interface [polypeptide binding]; other site 351348000949 Putative proton exit pathway; other site 351348000950 Subunit I/VIb interface; other site 351348000951 Subunit I/VIc interface [polypeptide binding]; other site 351348000952 Electron transfer pathway; other site 351348000953 Subunit I/VIIIb interface [polypeptide binding]; other site 351348000954 Subunit I/VIIb interface [polypeptide binding]; other site 351348000955 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 351348000956 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 351348000957 Subunit III/VIIa interface [polypeptide binding]; other site 351348000958 Phospholipid binding site [chemical binding]; other site 351348000959 Subunit I/III interface [polypeptide binding]; other site 351348000960 Subunit III/VIb interface [polypeptide binding]; other site 351348000961 Subunit III/VIa interface; other site 351348000962 Subunit III/Vb interface [polypeptide binding]; other site 351348000963 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 351348000964 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 351348000965 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 351348000966 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 351348000967 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 351348000968 UbiA prenyltransferase family; Region: UbiA; pfam01040 351348000969 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 351348000970 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 351348000971 Cu(I) binding site [ion binding]; other site 351348000972 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 351348000973 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 351348000974 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 351348000975 ATP binding site [chemical binding]; other site 351348000976 putative Mg++ binding site [ion binding]; other site 351348000977 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 351348000978 nucleotide binding region [chemical binding]; other site 351348000979 ATP-binding site [chemical binding]; other site 351348000980 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 351348000981 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 351348000982 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: GCD2; COG1184 351348000983 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 351348000984 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 351348000985 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351348000986 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 351348000987 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 351348000988 dimer interface [polypeptide binding]; other site 351348000989 active site 351348000990 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348000991 catalytic residues [active] 351348000992 substrate binding site [chemical binding]; other site 351348000993 cyanate transporter; Region: CynX; TIGR00896 351348000994 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 351348000995 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 351348000996 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 351348000997 G1 box; other site 351348000998 GTP/Mg2+ binding site [chemical binding]; other site 351348000999 G2 box; other site 351348001000 Switch I region; other site 351348001001 G3 box; other site 351348001002 Switch II region; other site 351348001003 G4 box; other site 351348001004 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 351348001005 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 351348001006 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 351348001007 PAS fold; Region: PAS_4; pfam08448 351348001008 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 351348001009 putative active site [active] 351348001010 heme pocket [chemical binding]; other site 351348001011 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351348001012 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 351348001013 Walker A motif; other site 351348001014 ATP binding site [chemical binding]; other site 351348001015 Walker B motif; other site 351348001016 arginine finger; other site 351348001017 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348001018 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 351348001019 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 351348001020 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 351348001021 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 351348001022 DctM-like transporters; Region: DctM; pfam06808 351348001023 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 351348001024 classical (c) SDRs; Region: SDR_c; cd05233 351348001025 NAD(P) binding site [chemical binding]; other site 351348001026 active site 351348001027 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 351348001028 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351348001029 acyl-activating enzyme (AAE) consensus motif; other site 351348001030 AMP binding site [chemical binding]; other site 351348001031 active site 351348001032 CoA binding site [chemical binding]; other site 351348001033 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 351348001034 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 351348001035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 351348001036 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 351348001037 putative deacylase active site [active] 351348001038 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 351348001039 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 351348001040 dimer interface [polypeptide binding]; other site 351348001041 active site 351348001042 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348001043 substrate binding site [chemical binding]; other site 351348001044 catalytic residue [active] 351348001045 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 351348001046 FAD binding domain; Region: FAD_binding_4; pfam01565 351348001047 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 351348001048 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 351348001049 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 351348001050 PAS fold; Region: PAS_3; pfam08447 351348001051 putative active site [active] 351348001052 heme pocket [chemical binding]; other site 351348001053 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001055 metal binding site [ion binding]; metal-binding site 351348001056 active site 351348001057 I-site; other site 351348001058 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 351348001059 Beta-lactamase; Region: Beta-lactamase; pfam00144 351348001060 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348001061 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348001062 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351348001063 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 351348001064 putative active site [active] 351348001065 heme pocket [chemical binding]; other site 351348001066 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 351348001067 dimer interface [polypeptide binding]; other site 351348001068 phosphorylation site [posttranslational modification] 351348001069 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 351348001070 ATP binding site [chemical binding]; other site 351348001071 Mg2+ binding site [ion binding]; other site 351348001072 G-X-G motif; other site 351348001073 Response regulator receiver domain; Region: Response_reg; pfam00072 351348001074 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 351348001075 active site 351348001076 phosphorylation site [posttranslational modification] 351348001077 intermolecular recognition site; other site 351348001078 dimerization interface [polypeptide binding]; other site 351348001079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348001080 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 351348001081 active site 351348001082 phosphorylation site [posttranslational modification] 351348001083 intermolecular recognition site; other site 351348001084 dimerization interface [polypeptide binding]; other site 351348001085 Response regulator receiver domain; Region: Response_reg; pfam00072 351348001086 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 351348001087 active site 351348001088 phosphorylation site [posttranslational modification] 351348001089 intermolecular recognition site; other site 351348001090 dimerization interface [polypeptide binding]; other site 351348001091 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 351348001092 active site 351348001093 catalytic site [active] 351348001094 substrate binding site [chemical binding]; other site 351348001095 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 351348001096 Ligand Binding Site [chemical binding]; other site 351348001097 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 351348001098 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 351348001099 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348001100 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348001101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348001102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351348001103 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 351348001104 generic binding surface II; other site 351348001105 generic binding surface I; other site 351348001106 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 351348001107 putative active site [active] 351348001108 putative catalytic site [active] 351348001109 putative Mg binding site IVb [ion binding]; other site 351348001110 putative phosphate binding site [ion binding]; other site 351348001111 putative DNA binding site [nucleotide binding]; other site 351348001112 putative Mg binding site IVa [ion binding]; other site 351348001113 Predicted transcriptional regulator [Transcription]; Region: COG2378 351348001114 WYL domain; Region: WYL; pfam13280 351348001115 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 351348001116 putative substrate translocation pore; other site 351348001117 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351348001118 MarR family; Region: MarR_2; pfam12802 351348001119 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 351348001120 putative substrate translocation pore; other site 351348001121 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 351348001122 yybP-ykoY element as predicted by Rfam (RF00080), score 58.41 351348001123 Predicted membrane protein [Function unknown]; Region: COG2119 351348001124 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 351348001125 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 351348001126 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348001127 short chain dehydrogenase; Provisional; Region: PRK08251 351348001128 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 351348001129 putative NAD(P) binding site [chemical binding]; other site 351348001130 active site 351348001131 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 351348001132 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 351348001133 dimer interface [polypeptide binding]; other site 351348001134 active site residues [active] 351348001135 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 351348001136 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 351348001137 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 351348001138 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348001139 potassium/proton antiporter; Reviewed; Region: PRK05326 351348001140 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 351348001141 TrkA-C domain; Region: TrkA_C; pfam02080 351348001142 Transporter associated domain; Region: CorC_HlyC; smart01091 351348001143 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 351348001144 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 351348001145 ATP binding site [chemical binding]; other site 351348001146 Mg2+ binding site [ion binding]; other site 351348001147 G-X-G motif; other site 351348001148 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348001149 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 351348001150 active site 351348001151 phosphorylation site [posttranslational modification] 351348001152 intermolecular recognition site; other site 351348001153 dimerization interface [polypeptide binding]; other site 351348001154 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 351348001155 DNA binding site [nucleotide binding] 351348001156 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 351348001157 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 351348001158 Multicopper oxidase; Region: Cu-oxidase; pfam00394 351348001159 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 351348001160 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 351348001161 amino acid transporter; Region: 2A0306; TIGR00909 351348001162 Uncharacterized conserved protein [Function unknown]; Region: COG3350 351348001163 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 351348001164 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351348001165 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 351348001166 motif II; other site 351348001167 Outer membrane efflux protein; Region: OEP; pfam02321 351348001168 Outer membrane efflux protein; Region: OEP; pfam02321 351348001169 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 351348001170 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348001171 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 351348001172 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 351348001173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348001174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348001175 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 351348001176 putative effector binding pocket; other site 351348001177 dimerization interface [polypeptide binding]; other site 351348001178 Predicted membrane protein [Function unknown]; Region: COG2259 351348001179 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 351348001180 putative active site [active] 351348001181 metal binding site [ion binding]; metal-binding site 351348001182 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 351348001183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348001184 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 351348001185 substrate binding site [chemical binding]; other site 351348001186 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 351348001187 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348001188 putative active site [active] 351348001189 putative metal binding site [ion binding]; other site 351348001190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348001191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348001192 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 351348001193 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 351348001194 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351348001195 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351348001196 mercuric reductase; Validated; Region: PRK06370 351348001197 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348001198 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348001199 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 351348001200 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351348001201 FeS/SAM binding site; other site 351348001202 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351348001203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348001204 Coenzyme A binding pocket [chemical binding]; other site 351348001205 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 351348001206 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 351348001207 inhibitor-cofactor binding pocket; inhibition site 351348001208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348001209 catalytic residue [active] 351348001210 aspartate kinase; Validated; Region: PRK09181 351348001211 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 351348001212 putative catalytic residues [active] 351348001213 putative nucleotide binding site [chemical binding]; other site 351348001214 putative aspartate binding site [chemical binding]; other site 351348001215 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 351348001216 allosteric regulatory residue; other site 351348001217 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 351348001218 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 351348001219 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348001220 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351348001221 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 351348001222 DNA binding residues [nucleotide binding] 351348001223 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 351348001224 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 351348001225 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 351348001226 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 351348001227 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351348001228 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 351348001229 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351348001230 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351348001231 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 351348001232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348001233 Zn2+ binding site [ion binding]; other site 351348001234 Mg2+ binding site [ion binding]; other site 351348001235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351348001236 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 351348001237 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 351348001238 NADP binding site [chemical binding]; other site 351348001239 active site 351348001240 steroid binding site; other site 351348001241 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001242 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001243 metal binding site [ion binding]; metal-binding site 351348001244 active site 351348001245 I-site; other site 351348001246 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 351348001247 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 351348001248 putative active site [active] 351348001249 putative dimer interface [polypeptide binding]; other site 351348001250 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 351348001251 AAA ATPase domain; Region: AAA_16; pfam13191 351348001252 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348001253 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351348001254 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 351348001255 DNA binding residues [nucleotide binding] 351348001256 dimerization interface [polypeptide binding]; other site 351348001257 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 351348001258 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 351348001259 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348001260 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348001261 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348001262 TM2 domain; Region: TM2; cl00984 351348001263 TM2 domain; Region: TM2; cl00984 351348001264 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351348001265 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351348001266 H+ Antiporter protein; Region: 2A0121; TIGR00900 351348001267 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 351348001268 putative substrate translocation pore; other site 351348001269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348001270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351348001271 putative acyl-acceptor binding pocket; other site 351348001272 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 351348001273 putative FMN binding site [chemical binding]; other site 351348001274 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 351348001275 nitrite reductase subunit NirD; Provisional; Region: PRK14989 351348001276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348001277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348001278 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351348001279 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351348001280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 351348001281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348001282 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348001283 Nitrate and nitrite sensing; Region: NIT; pfam08376 351348001284 ANTAR domain; Region: ANTAR; pfam03861 351348001285 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 351348001286 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 351348001287 Walker A/P-loop; other site 351348001288 ATP binding site [chemical binding]; other site 351348001289 Q-loop/lid; other site 351348001290 ABC transporter signature motif; other site 351348001291 Walker B; other site 351348001292 D-loop; other site 351348001293 H-loop/switch region; other site 351348001294 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 351348001295 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 351348001296 dimer interface [polypeptide binding]; other site 351348001297 conserved gate region; other site 351348001298 putative PBP binding loops; other site 351348001299 ABC-ATPase subunit interface; other site 351348001300 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 351348001301 NMT1-like family; Region: NMT1_2; pfam13379 351348001302 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 351348001303 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 351348001304 [4Fe-4S] binding site [ion binding]; other site 351348001305 molybdopterin cofactor binding site; other site 351348001306 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 351348001307 molybdopterin cofactor binding site; other site 351348001308 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351348001309 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 351348001310 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 351348001311 active site 351348001312 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 351348001313 Catalytic domain of Protein Kinases; Region: PKc; cd00180 351348001314 active site 351348001315 ATP binding site [chemical binding]; other site 351348001316 substrate binding site [chemical binding]; other site 351348001317 activation loop (A-loop); other site 351348001318 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 351348001319 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348001320 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348001321 Cache domain; Region: Cache_1; pfam02743 351348001322 HAMP domain; Region: HAMP; pfam00672 351348001323 PAS domain S-box; Region: sensory_box; TIGR00229 351348001324 PAS domain; Region: PAS; smart00091 351348001325 PAS fold; Region: PAS; pfam00989 351348001326 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 351348001327 putative active site [active] 351348001328 heme pocket [chemical binding]; other site 351348001329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001331 metal binding site [ion binding]; metal-binding site 351348001332 active site 351348001333 I-site; other site 351348001334 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351348001335 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 351348001336 active site 351348001337 Int/Topo IB signature motif; other site 351348001338 catalytic residues [active] 351348001339 DNA binding site [nucleotide binding] 351348001340 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 351348001341 active site 351348001342 catalytic residues [active] 351348001343 DNA binding site [nucleotide binding] 351348001344 Int/Topo IB signature motif; other site 351348001345 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 351348001346 active site 351348001347 catalytic residues [active] 351348001348 DNA binding site [nucleotide binding] 351348001349 Int/Topo IB signature motif; other site 351348001350 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348001351 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348001352 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 351348001353 Walker A motif; other site 351348001354 ATP binding site [chemical binding]; other site 351348001355 Walker B motif; other site 351348001356 arginine finger; other site 351348001357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348001358 Integrase core domain; Region: rve; pfam00665 351348001359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348001360 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 351348001361 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 351348001362 putative Mg++ binding site [ion binding]; other site 351348001363 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; cl17351 351348001364 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 351348001365 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 351348001366 active site 351348001367 catalytic site [active] 351348001368 substrate binding site [chemical binding]; other site 351348001369 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348001370 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 351348001371 putative active site [active] 351348001372 putative metal binding site [ion binding]; other site 351348001373 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 351348001374 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 351348001375 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351348001376 active site 351348001377 NTP binding site [chemical binding]; other site 351348001378 metal binding triad [ion binding]; metal-binding site 351348001379 antibiotic binding site [chemical binding]; other site 351348001380 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 351348001381 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 351348001382 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 351348001383 active site 351348001384 catalytic residues [active] 351348001385 DNA binding site [nucleotide binding] 351348001386 Int/Topo IB signature motif; other site 351348001387 Putative phage integrase; Region: Phage_Integr_2; pfam13009 351348001388 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 351348001389 DNA binding site [nucleotide binding] 351348001390 active site 351348001391 Int/Topo IB signature motif; other site 351348001392 catalytic residues [active] 351348001393 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 351348001394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348001395 DNA-binding site [nucleotide binding]; DNA binding site 351348001396 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 351348001397 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348001398 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348001399 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 351348001400 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348001401 Walker A/P-loop; other site 351348001402 ATP binding site [chemical binding]; other site 351348001403 Q-loop/lid; other site 351348001404 ABC transporter signature motif; other site 351348001405 Walker B; other site 351348001406 D-loop; other site 351348001407 H-loop/switch region; other site 351348001408 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348001409 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 351348001410 dimer interface [polypeptide binding]; other site 351348001411 conserved gate region; other site 351348001412 putative PBP binding loops; other site 351348001413 ABC-ATPase subunit interface; other site 351348001414 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 351348001415 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 351348001416 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 351348001417 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 351348001418 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 351348001419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348001420 Walker A/P-loop; other site 351348001421 ATP binding site [chemical binding]; other site 351348001422 Q-loop/lid; other site 351348001423 ABC transporter signature motif; other site 351348001424 Walker B; other site 351348001425 D-loop; other site 351348001426 H-loop/switch region; other site 351348001427 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 351348001428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348001429 Walker A/P-loop; other site 351348001430 ATP binding site [chemical binding]; other site 351348001431 Q-loop/lid; other site 351348001432 ABC transporter signature motif; other site 351348001433 Walker B; other site 351348001434 D-loop; other site 351348001435 H-loop/switch region; other site 351348001436 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 351348001437 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 351348001438 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 351348001439 active site 351348001440 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 351348001441 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348001442 active site 351348001443 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 351348001444 putative hydrolase; Provisional; Region: PRK02113 351348001445 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 351348001446 EamA-like transporter family; Region: EamA; cl17759 351348001447 EamA-like transporter family; Region: EamA; pfam00892 351348001448 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 351348001449 SIR2-like domain; Region: SIR2_2; pfam13289 351348001450 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 351348001451 DNA-binding site [nucleotide binding]; DNA binding site 351348001452 RNA-binding motif; other site 351348001453 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 351348001454 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 351348001455 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 351348001456 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351348001457 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 351348001458 ATP binding site [chemical binding]; other site 351348001459 putative Mg++ binding site [ion binding]; other site 351348001460 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 351348001461 GIY-YIG motif/motif A; other site 351348001462 putative active site [active] 351348001463 putative metal binding site [ion binding]; other site 351348001464 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351348001465 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348001466 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351348001467 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351348001468 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348001469 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348001470 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348001471 catalytic residues [active] 351348001472 catalytic nucleophile [active] 351348001473 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348001474 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348001475 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348001476 Synaptic Site I dimer interface [polypeptide binding]; other site 351348001477 DNA binding site [nucleotide binding] 351348001478 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 351348001479 putative transposase OrfB; Reviewed; Region: PHA02517 351348001480 HTH-like domain; Region: HTH_21; pfam13276 351348001481 Integrase core domain; Region: rve; pfam00665 351348001482 Integrase core domain; Region: rve_3; pfam13683 351348001483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348001484 Homeodomain-like domain; Region: HTH_23; cl17451 351348001485 putative transcriptional regulator MerR; Provisional; Region: PRK13752 351348001486 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 351348001487 DNA binding residues [nucleotide binding] 351348001488 dimer interface [polypeptide binding]; other site 351348001489 mercury binding site [ion binding]; other site 351348001490 putative mercuric transport protein; Provisional; Region: PRK13751 351348001491 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 351348001492 metal-binding site [ion binding] 351348001493 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 351348001494 putative mercuric reductase; Provisional; Region: PRK14694 351348001495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348001496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348001497 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348001498 alkylmercury lyase; Provisional; Region: PRK13239 351348001499 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 351348001500 Alkylmercury lyase; Region: MerB; pfam03243 351348001501 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 351348001502 Amidase; Region: Amidase; pfam01425 351348001503 Response regulator receiver domain; Region: Response_reg; pfam00072 351348001504 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 351348001505 active site 351348001506 phosphorylation site [posttranslational modification] 351348001507 intermolecular recognition site; other site 351348001508 dimerization interface [polypeptide binding]; other site 351348001509 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351348001510 GAF domain; Region: GAF; cl17456 351348001511 PAS domain; Region: PAS_9; pfam13426 351348001512 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 351348001513 putative active site [active] 351348001514 heme pocket [chemical binding]; other site 351348001515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001517 metal binding site [ion binding]; metal-binding site 351348001518 active site 351348001519 I-site; other site 351348001520 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 351348001521 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348001522 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 351348001523 active site 351348001524 phosphorylation site [posttranslational modification] 351348001525 intermolecular recognition site; other site 351348001526 dimerization interface [polypeptide binding]; other site 351348001527 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 351348001528 PAS domain; Region: PAS_9; pfam13426 351348001529 putative active site [active] 351348001530 heme pocket [chemical binding]; other site 351348001531 PAS domain S-box; Region: sensory_box; TIGR00229 351348001532 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 351348001533 putative active site [active] 351348001534 heme pocket [chemical binding]; other site 351348001535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348001536 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 351348001537 dimer interface [polypeptide binding]; other site 351348001538 phosphorylation site [posttranslational modification] 351348001539 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 351348001540 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 351348001541 ATP binding site [chemical binding]; other site 351348001542 Mg2+ binding site [ion binding]; other site 351348001543 G-X-G motif; other site 351348001544 HDOD domain; Region: HDOD; pfam08668 351348001545 GAF domain; Region: GAF; cl17456 351348001546 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 351348001547 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 351348001548 Walker A/P-loop; other site 351348001549 ATP binding site [chemical binding]; other site 351348001550 Q-loop/lid; other site 351348001551 ABC transporter signature motif; other site 351348001552 Walker B; other site 351348001553 D-loop; other site 351348001554 H-loop/switch region; other site 351348001555 NIL domain; Region: NIL; pfam09383 351348001556 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 351348001557 dimer interface [polypeptide binding]; other site 351348001558 conserved gate region; other site 351348001559 ABC-ATPase subunit interface; other site 351348001560 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 351348001561 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 351348001562 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351348001563 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 351348001564 dimer interface [polypeptide binding]; other site 351348001565 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351348001566 catalytic triad [active] 351348001567 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 351348001568 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 351348001569 FOG: CBS domain [General function prediction only]; Region: COG0517 351348001570 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_16; cd04629 351348001571 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 351348001572 S-formylglutathione hydrolase; Region: PLN02442 351348001573 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348001574 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348001575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001577 metal binding site [ion binding]; metal-binding site 351348001578 active site 351348001579 I-site; other site 351348001580 multidrug efflux protein; Reviewed; Region: PRK01766 351348001581 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 351348001582 cation binding site [ion binding]; other site 351348001583 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 351348001584 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 351348001585 PAS fold; Region: PAS_3; pfam08447 351348001586 putative active site [active] 351348001587 heme pocket [chemical binding]; other site 351348001588 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348001589 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348001590 dimer interface [polypeptide binding]; other site 351348001591 putative CheW interface [polypeptide binding]; other site 351348001592 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 351348001593 Na2 binding site [ion binding]; other site 351348001594 putative substrate binding site 1 [chemical binding]; other site 351348001595 Na binding site 1 [ion binding]; other site 351348001596 putative substrate binding site 2 [chemical binding]; other site 351348001597 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 351348001598 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 351348001599 active site 351348001600 catalytic site [active] 351348001601 substrate binding site [chemical binding]; other site 351348001602 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 351348001603 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 351348001604 ligand binding site [chemical binding]; other site 351348001605 flexible hinge region; other site 351348001606 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 351348001607 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351348001608 metal binding triad; other site 351348001609 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 351348001610 homotrimer interface [polypeptide binding]; other site 351348001611 Walker A motif; other site 351348001612 GTP binding site [chemical binding]; other site 351348001613 Walker B motif; other site 351348001614 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 351348001615 catalytic core [active] 351348001616 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 351348001617 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 351348001618 putative dimer interface [polypeptide binding]; other site 351348001619 active site pocket [active] 351348001620 putative cataytic base [active] 351348001621 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 351348001622 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 351348001623 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 351348001624 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351348001625 catalytic residue [active] 351348001626 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 351348001627 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 351348001628 N-terminal plug; other site 351348001629 ligand-binding site [chemical binding]; other site 351348001630 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 351348001631 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 351348001632 cobalamin binding residues [chemical binding]; other site 351348001633 putative BtuC binding residues; other site 351348001634 dimer interface [polypeptide binding]; other site 351348001635 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 351348001636 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 351348001637 dimer interface [polypeptide binding]; other site 351348001638 putative PBP binding regions; other site 351348001639 ABC-ATPase subunit interface; other site 351348001640 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 351348001641 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 351348001642 Walker A/P-loop; other site 351348001643 ATP binding site [chemical binding]; other site 351348001644 Q-loop/lid; other site 351348001645 ABC transporter signature motif; other site 351348001646 Walker B; other site 351348001647 D-loop; other site 351348001648 H-loop/switch region; other site 351348001649 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 351348001650 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 351348001651 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 351348001652 catalytic triad [active] 351348001653 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 351348001654 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 351348001655 homodimer interface [polypeptide binding]; other site 351348001656 Walker A motif; other site 351348001657 ATP binding site [chemical binding]; other site 351348001658 hydroxycobalamin binding site [chemical binding]; other site 351348001659 Walker B motif; other site 351348001660 cobyric acid synthase; Provisional; Region: PRK00784 351348001661 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 351348001662 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 351348001663 catalytic triad [active] 351348001664 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 351348001665 cobalamin synthase; Reviewed; Region: cobS; PRK00235 351348001666 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 351348001667 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 351348001668 Uncharacterized conserved protein [Function unknown]; Region: COG0398 351348001669 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 351348001670 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351348001671 Ligand binding site; other site 351348001672 Putative Catalytic site; other site 351348001673 DXD motif; other site 351348001674 sensor protein QseC; Provisional; Region: PRK10337 351348001675 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 351348001676 dimer interface [polypeptide binding]; other site 351348001677 phosphorylation site [posttranslational modification] 351348001678 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 351348001679 ATP binding site [chemical binding]; other site 351348001680 Mg2+ binding site [ion binding]; other site 351348001681 G-X-G motif; other site 351348001682 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348001683 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 351348001684 active site 351348001685 phosphorylation site [posttranslational modification] 351348001686 intermolecular recognition site; other site 351348001687 dimerization interface [polypeptide binding]; other site 351348001688 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 351348001689 DNA binding site [nucleotide binding] 351348001690 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 351348001691 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 351348001692 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 351348001693 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 351348001694 Ligand binding site; other site 351348001695 Putative Catalytic site; other site 351348001696 DXD motif; other site 351348001697 GtrA-like protein; Region: GtrA; pfam04138 351348001698 Thermostable hemolysin; Region: T_hemolysin; pfam12261 351348001699 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 351348001700 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 351348001701 acyl-activating enzyme (AAE) consensus motif; other site 351348001702 putative AMP binding site [chemical binding]; other site 351348001703 putative active site [active] 351348001704 putative CoA binding site [chemical binding]; other site 351348001705 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 351348001706 heme binding pocket [chemical binding]; other site 351348001707 heme ligand [chemical binding]; other site 351348001708 short chain dehydrogenase; Provisional; Region: PRK09072 351348001709 classical (c) SDRs; Region: SDR_c; cd05233 351348001710 NAD(P) binding site [chemical binding]; other site 351348001711 active site 351348001712 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 351348001713 TPR motif; other site 351348001714 binding surface 351348001715 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 351348001716 PAS fold; Region: PAS_3; pfam08447 351348001717 putative active site [active] 351348001718 heme pocket [chemical binding]; other site 351348001719 GAF domain; Region: GAF_3; pfam13492 351348001720 GAF domain; Region: GAF_2; pfam13185 351348001721 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001723 metal binding site [ion binding]; metal-binding site 351348001724 active site 351348001725 I-site; other site 351348001726 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351348001727 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 351348001728 high affinity sulphate transporter 1; Region: sulP; TIGR00815 351348001729 Sulfate transporter family; Region: Sulfate_transp; pfam00916 351348001730 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 351348001731 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 351348001732 Predicted membrane protein [Function unknown]; Region: COG3235 351348001733 PAS domain; Region: PAS_9; pfam13426 351348001734 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 351348001735 putative active site [active] 351348001736 heme pocket [chemical binding]; other site 351348001737 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 351348001738 PAS domain; Region: PAS_9; pfam13426 351348001739 putative active site [active] 351348001740 heme pocket [chemical binding]; other site 351348001741 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001742 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001743 metal binding site [ion binding]; metal-binding site 351348001744 active site 351348001745 I-site; other site 351348001746 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 351348001747 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 351348001748 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 351348001749 active site 351348001750 phosphorylation site [posttranslational modification] 351348001751 intermolecular recognition site; other site 351348001752 dimerization interface [polypeptide binding]; other site 351348001753 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348001754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348001755 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 351348001756 ATP binding site [chemical binding]; other site 351348001757 G-X-G motif; other site 351348001758 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 351348001759 glutamate dehydrogenase; Provisional; Region: PRK09414 351348001760 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 351348001761 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 351348001762 NAD(P) binding site [chemical binding]; other site 351348001763 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 351348001764 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 351348001765 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348001766 Protein export membrane protein; Region: SecD_SecF; cl14618 351348001767 Ion channel; Region: Ion_trans_2; pfam07885 351348001768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348001769 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348001770 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348001771 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348001772 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348001773 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348001774 Walker A/P-loop; other site 351348001775 ATP binding site [chemical binding]; other site 351348001776 Q-loop/lid; other site 351348001777 ABC transporter signature motif; other site 351348001778 Walker B; other site 351348001779 D-loop; other site 351348001780 H-loop/switch region; other site 351348001781 FtsX-like permease family; Region: FtsX; pfam02687 351348001782 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 351348001783 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 351348001784 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 351348001785 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 351348001786 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348001787 ligand binding site [chemical binding]; other site 351348001788 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351348001789 Uncharacterized conserved protein [Function unknown]; Region: COG3339 351348001790 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 351348001791 DTW domain; Region: DTW; cl01221 351348001792 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 351348001793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348001794 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 351348001795 DNA photolyase; Region: DNA_photolyase; pfam00875 351348001796 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 351348001797 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 351348001798 substrate binding site [chemical binding]; other site 351348001799 catalytic Zn binding site [ion binding]; other site 351348001800 NAD binding site [chemical binding]; other site 351348001801 structural Zn binding site [ion binding]; other site 351348001802 dimer interface [polypeptide binding]; other site 351348001803 hypothetical protein; Validated; Region: PRK09039 351348001804 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348001805 ligand binding site [chemical binding]; other site 351348001806 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 351348001807 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 351348001808 potential catalytic triad [active] 351348001809 conserved cys residue [active] 351348001810 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348001811 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348001812 substrate binding pocket [chemical binding]; other site 351348001813 membrane-bound complex binding site; other site 351348001814 hinge residues; other site 351348001815 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 351348001816 Cytochrome C' Region: Cytochrom_C_2; pfam01322 351348001817 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 351348001818 CoenzymeA binding site [chemical binding]; other site 351348001819 subunit interaction site [polypeptide binding]; other site 351348001820 PHB binding site; other site 351348001821 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 351348001822 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348001823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348001824 Zn2+ binding site [ion binding]; other site 351348001825 Mg2+ binding site [ion binding]; other site 351348001826 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348001827 substrate binding pocket [chemical binding]; other site 351348001828 membrane-bound complex binding site; other site 351348001829 hinge residues; other site 351348001830 PAS domain; Region: PAS_9; pfam13426 351348001831 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001833 metal binding site [ion binding]; metal-binding site 351348001834 active site 351348001835 I-site; other site 351348001836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 351348001837 SEC-C motif; Region: SEC-C; pfam02810 351348001838 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 351348001839 active site residue [active] 351348001840 Predicted permeases [General function prediction only]; Region: RarD; COG2962 351348001841 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 351348001842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348001843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348001844 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 351348001845 dimerization interface [polypeptide binding]; other site 351348001846 Cation efflux family; Region: Cation_efflux; cl00316 351348001847 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 351348001848 catalytic core [active] 351348001849 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 351348001850 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 351348001851 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 351348001852 dimerization interface [polypeptide binding]; other site 351348001853 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348001854 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348001855 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348001856 dimer interface [polypeptide binding]; other site 351348001857 putative CheW interface [polypeptide binding]; other site 351348001858 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 351348001859 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 351348001860 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 351348001861 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 351348001862 Walker A/P-loop; other site 351348001863 ATP binding site [chemical binding]; other site 351348001864 Q-loop/lid; other site 351348001865 ABC transporter signature motif; other site 351348001866 Walker B; other site 351348001867 D-loop; other site 351348001868 H-loop/switch region; other site 351348001869 TOBE domain; Region: TOBE_2; pfam08402 351348001870 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 351348001871 dimer interface [polypeptide binding]; other site 351348001872 conserved gate region; other site 351348001873 putative PBP binding loops; other site 351348001874 ABC-ATPase subunit interface; other site 351348001875 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 351348001876 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 351348001877 dimer interface [polypeptide binding]; other site 351348001878 conserved gate region; other site 351348001879 putative PBP binding loops; other site 351348001880 ABC-ATPase subunit interface; other site 351348001881 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 351348001882 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348001883 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 351348001884 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348001885 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351348001886 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348001887 Walker A/P-loop; other site 351348001888 ATP binding site [chemical binding]; other site 351348001889 Q-loop/lid; other site 351348001890 ABC transporter signature motif; other site 351348001891 Walker B; other site 351348001892 D-loop; other site 351348001893 H-loop/switch region; other site 351348001894 TOBE domain; Region: TOBE_2; pfam08402 351348001895 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 351348001896 dimer interface [polypeptide binding]; other site 351348001897 conserved gate region; other site 351348001898 putative PBP binding loops; other site 351348001899 ABC-ATPase subunit interface; other site 351348001900 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 351348001901 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 351348001902 dimer interface [polypeptide binding]; other site 351348001903 conserved gate region; other site 351348001904 putative PBP binding loops; other site 351348001905 ABC-ATPase subunit interface; other site 351348001906 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348001907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348001908 metal binding site [ion binding]; metal-binding site 351348001909 active site 351348001910 I-site; other site 351348001911 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 351348001912 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 351348001913 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 351348001914 Ligand Binding Site [chemical binding]; other site 351348001915 DctM-like transporters; Region: DctM; pfam06808 351348001916 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 351348001917 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 351348001918 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 351348001919 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 351348001920 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351348001921 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 351348001922 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 351348001923 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 351348001924 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 351348001925 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 351348001926 active site 351348001927 metal binding site [ion binding]; metal-binding site 351348001928 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 351348001929 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 351348001930 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 351348001931 generic binding surface II; other site 351348001932 generic binding surface I; other site 351348001933 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 351348001934 putative active site [active] 351348001935 putative catalytic site [active] 351348001936 putative Mg binding site IVb [ion binding]; other site 351348001937 putative phosphate binding site [ion binding]; other site 351348001938 putative DNA binding site [nucleotide binding]; other site 351348001939 putative Mg binding site IVa [ion binding]; other site 351348001940 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 351348001941 catalytic residues [active] 351348001942 dimer interface [polypeptide binding]; other site 351348001943 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 351348001944 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351348001945 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351348001946 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 351348001947 S-adenosylmethionine binding site [chemical binding]; other site 351348001948 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 351348001949 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348001950 DNA-binding site [nucleotide binding]; DNA binding site 351348001951 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351348001952 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 351348001953 L-lactate permease; Region: Lactate_perm; cl00701 351348001954 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351348001955 Cysteine-rich domain; Region: CCG; pfam02754 351348001956 Cysteine-rich domain; Region: CCG; pfam02754 351348001957 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 351348001958 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 351348001959 4Fe-4S binding domain; Region: Fer4; pfam00037 351348001960 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 351348001961 Uncharacterized conserved protein [Function unknown]; Region: COG1556 351348001962 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 351348001963 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 351348001964 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 351348001965 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 351348001966 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 351348001967 ligand binding site [chemical binding]; other site 351348001968 homodimer interface [polypeptide binding]; other site 351348001969 NAD(P) binding site [chemical binding]; other site 351348001970 trimer interface B [polypeptide binding]; other site 351348001971 trimer interface A [polypeptide binding]; other site 351348001972 malate:quinone oxidoreductase; Validated; Region: PRK05257 351348001973 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 351348001974 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 351348001975 dimer interface [polypeptide binding]; other site 351348001976 FMN binding site [chemical binding]; other site 351348001977 NADPH bind site [chemical binding]; other site 351348001978 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 351348001979 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 351348001980 active site residue [active] 351348001981 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 351348001982 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 351348001983 gating phenylalanine in ion channel; other site 351348001984 DsrE/DsrF-like family; Region: DrsE; cl00672 351348001985 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 351348001986 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 351348001987 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 351348001988 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 351348001989 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 351348001990 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351348001991 Putative phosphatase (DUF442); Region: DUF442; cl17385 351348001992 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351348001993 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 351348001994 dimer interface [polypeptide binding]; other site 351348001995 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351348001996 catalytic triad [active] 351348001997 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 351348001998 Transposase domain (DUF772); Region: DUF772; pfam05598 351348001999 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351348002000 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348002001 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 351348002002 Fructosamine kinase; Region: Fructosamin_kin; cl17579 351348002003 Phosphotransferase enzyme family; Region: APH; pfam01636 351348002004 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 351348002005 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 351348002006 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351348002007 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 351348002008 S-adenosylmethionine binding site [chemical binding]; other site 351348002009 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 351348002010 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 351348002011 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351348002012 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 351348002013 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 351348002014 S-adenosylmethionine binding site [chemical binding]; other site 351348002015 PAS domain; Region: PAS_9; pfam13426 351348002016 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 351348002017 putative active site [active] 351348002018 heme pocket [chemical binding]; other site 351348002019 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348002020 dimer interface [polypeptide binding]; other site 351348002021 putative CheW interface [polypeptide binding]; other site 351348002022 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348002023 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 351348002024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 351348002025 DNA-binding site [nucleotide binding]; DNA binding site 351348002026 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 351348002027 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348002028 active site 351348002029 Int/Topo IB signature motif; other site 351348002030 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 351348002031 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 351348002032 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351348002033 active site 351348002034 NTP binding site [chemical binding]; other site 351348002035 metal binding triad [ion binding]; metal-binding site 351348002036 antibiotic binding site [chemical binding]; other site 351348002037 HTH-like domain; Region: HTH_21; pfam13276 351348002038 Integrase core domain; Region: rve; pfam00665 351348002039 Integrase core domain; Region: rve_3; pfam13683 351348002040 Transposase; Region: HTH_Tnp_1; pfam01527 351348002041 HipA N-terminal domain; Region: Couple_hipA; pfam13657 351348002042 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 351348002043 active site 351348002044 catalytic site [active] 351348002045 substrate binding site [chemical binding]; other site 351348002046 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 351348002047 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348002048 active site 351348002049 metal binding site [ion binding]; metal-binding site 351348002050 Transposase; Region: HTH_Tnp_1; pfam01527 351348002051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348002052 putative transposase OrfB; Reviewed; Region: PHA02517 351348002053 HTH-like domain; Region: HTH_21; pfam13276 351348002054 Integrase core domain; Region: rve; pfam00665 351348002055 Integrase core domain; Region: rve_3; pfam13683 351348002056 Winged helix-turn helix; Region: HTH_29; pfam13551 351348002057 Helix-turn-helix domain; Region: HTH_28; pfam13518 351348002058 Winged helix-turn helix; Region: HTH_33; pfam13592 351348002059 DDE superfamily endonuclease; Region: DDE_3; pfam13358 351348002060 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 351348002061 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348002062 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348002063 catalytic residues [active] 351348002064 catalytic nucleophile [active] 351348002065 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348002066 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348002067 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348002068 Synaptic Site I dimer interface [polypeptide binding]; other site 351348002069 DNA binding site [nucleotide binding] 351348002070 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 351348002071 DNA-binding interface [nucleotide binding]; DNA binding site 351348002072 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; cl17257 351348002073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348002074 Integrase core domain; Region: rve; pfam00665 351348002075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348002076 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348002077 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348002078 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 351348002079 Walker A motif; other site 351348002080 ATP binding site [chemical binding]; other site 351348002081 Walker B motif; other site 351348002082 arginine finger; other site 351348002083 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348002084 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351348002085 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351348002086 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348002087 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348002088 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351348002089 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348002090 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 351348002091 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351348002092 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 351348002093 ATP binding site [chemical binding]; other site 351348002094 putative Mg++ binding site [ion binding]; other site 351348002095 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 351348002096 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 351348002097 WYL domain; Region: WYL; pfam13280 351348002098 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 351348002099 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348002100 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 351348002101 putative C-terminal domain interface [polypeptide binding]; other site 351348002102 putative GSH binding site (G-site) [chemical binding]; other site 351348002103 putative dimer interface [polypeptide binding]; other site 351348002104 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 351348002105 N-terminal domain interface [polypeptide binding]; other site 351348002106 dimer interface [polypeptide binding]; other site 351348002107 substrate binding pocket (H-site) [chemical binding]; other site 351348002108 Transcriptional activator [Transcription]; Region: ChrR; COG3806 351348002109 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348002110 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348002111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348002112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348002113 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 351348002114 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351348002115 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 351348002116 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351348002117 active site 351348002118 catalytic tetrad [active] 351348002119 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348002120 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348002121 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348002122 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348002123 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348002124 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 351348002125 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 351348002126 catalytic site [active] 351348002127 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 351348002128 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 351348002129 CoenzymeA binding site [chemical binding]; other site 351348002130 subunit interaction site [polypeptide binding]; other site 351348002131 PHB binding site; other site 351348002132 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 351348002133 CoenzymeA binding site [chemical binding]; other site 351348002134 subunit interaction site [polypeptide binding]; other site 351348002135 PHB binding site; other site 351348002136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348002137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348002138 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 351348002139 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 351348002140 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348002141 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 351348002142 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 351348002143 dimer interface [polypeptide binding]; other site 351348002144 acyl-activating enzyme (AAE) consensus motif; other site 351348002145 putative active site [active] 351348002146 AMP binding site [chemical binding]; other site 351348002147 putative CoA binding site [chemical binding]; other site 351348002148 choline dehydrogenase; Validated; Region: PRK02106 351348002149 lycopene cyclase; Region: lycopene_cycl; TIGR01789 351348002150 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 351348002151 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 351348002152 NAD(P) binding site [chemical binding]; other site 351348002153 catalytic residues [active] 351348002154 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 351348002155 Rubredoxin; Region: Rubredoxin; pfam00301 351348002156 iron binding site [ion binding]; other site 351348002157 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 351348002158 Rubredoxin; Region: Rubredoxin; pfam00301 351348002159 iron binding site [ion binding]; other site 351348002160 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 351348002161 Fatty acid desaturase; Region: FA_desaturase; pfam00487 351348002162 Di-iron ligands [ion binding]; other site 351348002163 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 351348002164 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 351348002165 DNA binding residues [nucleotide binding] 351348002166 dimerization interface [polypeptide binding]; other site 351348002167 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 351348002168 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348002169 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348002170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 351348002171 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 351348002172 Fic family protein [Function unknown]; Region: COG3177 351348002173 Fic/DOC family; Region: Fic; pfam02661 351348002174 YaeQ protein; Region: YaeQ; pfam07152 351348002175 LrgA family; Region: LrgA; pfam03788 351348002176 LrgB-like family; Region: LrgB; pfam04172 351348002177 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 351348002178 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 351348002179 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 351348002180 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 351348002181 dimer interface [polypeptide binding]; other site 351348002182 conserved gate region; other site 351348002183 putative PBP binding loops; other site 351348002184 ABC-ATPase subunit interface; other site 351348002185 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 351348002186 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 351348002187 dimer interface [polypeptide binding]; other site 351348002188 conserved gate region; other site 351348002189 putative PBP binding loops; other site 351348002190 ABC-ATPase subunit interface; other site 351348002191 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 351348002192 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348002193 Walker A/P-loop; other site 351348002194 ATP binding site [chemical binding]; other site 351348002195 Q-loop/lid; other site 351348002196 ABC transporter signature motif; other site 351348002197 Walker B; other site 351348002198 D-loop; other site 351348002199 H-loop/switch region; other site 351348002200 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 351348002201 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 351348002202 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348002203 Walker A/P-loop; other site 351348002204 ATP binding site [chemical binding]; other site 351348002205 Q-loop/lid; other site 351348002206 ABC transporter signature motif; other site 351348002207 Walker B; other site 351348002208 D-loop; other site 351348002209 H-loop/switch region; other site 351348002210 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 351348002211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348002212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348002213 LysR substrate binding domain; Region: LysR_substrate; pfam03466 351348002214 proline dipeptidase; Provisional; Region: PRK13607 351348002215 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 351348002216 active site 351348002217 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 351348002218 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 351348002219 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 351348002220 heme binding site [chemical binding]; other site 351348002221 ferroxidase pore; other site 351348002222 ferroxidase diiron center [ion binding]; other site 351348002223 phosphomannomutase CpsG; Provisional; Region: PRK15414 351348002224 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 351348002225 active site 351348002226 substrate binding site [chemical binding]; other site 351348002227 metal binding site [ion binding]; metal-binding site 351348002228 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 351348002229 substrate binding site [chemical binding]; other site 351348002230 dimerization interface [polypeptide binding]; other site 351348002231 active site 351348002232 calcium binding site [ion binding]; other site 351348002233 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 351348002234 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 351348002235 Part of AAA domain; Region: AAA_19; pfam13245 351348002236 Family description; Region: UvrD_C_2; pfam13538 351348002237 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; cl17736 351348002238 active site 351348002239 phosphorylation site [posttranslational modification] 351348002240 intermolecular recognition site; other site 351348002241 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348002242 metal binding site [ion binding]; metal-binding site 351348002243 active site 351348002244 I-site; other site 351348002245 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 351348002246 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 351348002247 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 351348002248 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 351348002249 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 351348002250 RNA binding site [nucleotide binding]; other site 351348002251 glutamate--cysteine ligase; Provisional; Region: PRK02107 351348002252 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 351348002253 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 351348002254 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 351348002255 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 351348002256 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 351348002257 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348002258 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 351348002259 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 351348002260 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348002261 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348002262 ABC transporter; Region: ABC_tran_2; pfam12848 351348002263 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348002264 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 351348002265 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 351348002266 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 351348002267 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348002268 catalytic residues [active] 351348002269 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 351348002270 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 351348002271 GTP binding site; other site 351348002272 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 351348002273 MoaE homodimer interface [polypeptide binding]; other site 351348002274 MoaD interaction [polypeptide binding]; other site 351348002275 active site residues [active] 351348002276 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 351348002277 MoaE interaction surface [polypeptide binding]; other site 351348002278 MoeB interaction surface [polypeptide binding]; other site 351348002279 thiocarboxylated glycine; other site 351348002280 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 351348002281 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 351348002282 dimer interface [polypeptide binding]; other site 351348002283 putative functional site; other site 351348002284 putative MPT binding site; other site 351348002285 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 351348002286 MPT binding site; other site 351348002287 trimer interface [polypeptide binding]; other site 351348002288 transcription termination factor Rho; Provisional; Region: rho; PRK09376 351348002289 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 351348002290 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 351348002291 RNA binding site [nucleotide binding]; other site 351348002292 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 351348002293 multimer interface [polypeptide binding]; other site 351348002294 Walker A motif; other site 351348002295 ATP binding site [chemical binding]; other site 351348002296 Walker B motif; other site 351348002297 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 351348002298 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 351348002299 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 351348002300 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 351348002301 FAD binding pocket [chemical binding]; other site 351348002302 FAD binding motif [chemical binding]; other site 351348002303 phosphate binding motif [ion binding]; other site 351348002304 beta-alpha-beta structure motif; other site 351348002305 NAD binding pocket [chemical binding]; other site 351348002306 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 351348002307 HemY protein N-terminus; Region: HemY_N; pfam07219 351348002308 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 351348002309 HemX; Region: HemX; pfam04375 351348002310 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 351348002311 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 351348002312 active site 351348002313 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 351348002314 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 351348002315 domain interfaces; other site 351348002316 active site 351348002317 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 351348002318 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 351348002319 active site 351348002320 phosphorylation site [posttranslational modification] 351348002321 intermolecular recognition site; other site 351348002322 dimerization interface [polypeptide binding]; other site 351348002323 LytTr DNA-binding domain; Region: LytTR; smart00850 351348002324 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 351348002325 Histidine kinase; Region: His_kinase; pfam06580 351348002326 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 351348002327 argininosuccinate lyase; Provisional; Region: PRK00855 351348002328 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 351348002329 active sites [active] 351348002330 tetramer interface [polypeptide binding]; other site 351348002331 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 351348002332 PAS domain; Region: PAS_9; pfam13426 351348002333 putative active site [active] 351348002334 heme pocket [chemical binding]; other site 351348002335 PAS domain; Region: PAS_9; pfam13426 351348002336 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348002337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348002338 metal binding site [ion binding]; metal-binding site 351348002339 active site 351348002340 I-site; other site 351348002341 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 351348002342 adenylate cyclase; Provisional; Region: cyaA; PRK09450 351348002343 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 351348002344 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 351348002345 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 351348002346 diaminopimelate decarboxylase; Region: lysA; TIGR01048 351348002347 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 351348002348 active site 351348002349 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348002350 substrate binding site [chemical binding]; other site 351348002351 catalytic residues [active] 351348002352 dimer interface [polypeptide binding]; other site 351348002353 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 351348002354 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351348002355 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351348002356 Protein of unknown function, DUF484; Region: DUF484; cl17449 351348002357 GAF domain; Region: GAF_2; pfam13185 351348002358 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 351348002359 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 351348002360 active site 351348002361 Int/Topo IB signature motif; other site 351348002362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348002363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348002364 metal binding site [ion binding]; metal-binding site 351348002365 active site 351348002366 I-site; other site 351348002367 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 351348002368 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348002369 substrate binding pocket [chemical binding]; other site 351348002370 membrane-bound complex binding site; other site 351348002371 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348002372 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348002373 substrate binding pocket [chemical binding]; other site 351348002374 membrane-bound complex binding site; other site 351348002375 hinge residues; other site 351348002376 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 351348002377 dimer interface [polypeptide binding]; other site 351348002378 phosphorylation site [posttranslational modification] 351348002379 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 351348002380 ATP binding site [chemical binding]; other site 351348002381 Mg2+ binding site [ion binding]; other site 351348002382 G-X-G motif; other site 351348002383 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 351348002384 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 351348002385 active site 351348002386 nucleophile elbow; other site 351348002387 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348002388 Surface antigen; Region: Bac_surface_Ag; pfam01103 351348002389 Transcriptional regulators [Transcription]; Region: GntR; COG1802 351348002390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348002391 DNA-binding site [nucleotide binding]; DNA binding site 351348002392 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 351348002393 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 351348002394 putative active site [active] 351348002395 catalytic site [active] 351348002396 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 351348002397 putative active site [active] 351348002398 catalytic site [active] 351348002399 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348002400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348002401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348002402 PGAP1-like protein; Region: PGAP1; pfam07819 351348002403 acyl-CoA esterase; Provisional; Region: PRK10673 351348002404 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 351348002405 Strictosidine synthase; Region: Str_synth; pfam03088 351348002406 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 351348002407 active site 351348002408 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351348002409 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 351348002410 putative NAD(P) binding site [chemical binding]; other site 351348002411 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 351348002412 TrkA-N domain; Region: TrkA_N; pfam02254 351348002413 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 351348002414 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 351348002415 putative ATP binding site [chemical binding]; other site 351348002416 putative substrate interface [chemical binding]; other site 351348002417 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348002418 active site 351348002419 metal binding site [ion binding]; metal-binding site 351348002420 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 351348002421 DNA binding residues [nucleotide binding] 351348002422 dimerization interface [polypeptide binding]; other site 351348002423 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 351348002424 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 351348002425 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 351348002426 FAD binding site [chemical binding]; other site 351348002427 substrate binding site [chemical binding]; other site 351348002428 catalytic residues [active] 351348002429 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 351348002430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348002431 C factor cell-cell signaling protein; Provisional; Region: PRK09009 351348002432 NAD(P) binding site [chemical binding]; other site 351348002433 active site 351348002434 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 351348002435 Putative zinc-finger; Region: zf-HC2; pfam13490 351348002436 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348002437 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 351348002438 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348002439 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 351348002440 DNA binding residues [nucleotide binding] 351348002441 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348002442 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348002443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348002444 arginine decarboxylase; Provisional; Region: PRK05354 351348002445 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 351348002446 dimer interface [polypeptide binding]; other site 351348002447 active site 351348002448 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348002449 catalytic residues [active] 351348002450 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 351348002451 spermidine synthase; Provisional; Region: PRK00811 351348002452 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 351348002453 S-adenosylmethionine binding site [chemical binding]; other site 351348002454 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 351348002455 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 351348002456 Nitrogen regulatory protein P-II; Region: P-II; smart00938 351348002457 Membrane fusogenic activity; Region: BMFP; pfam04380 351348002458 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 351348002459 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 351348002460 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 351348002461 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 351348002462 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 351348002463 S-adenosylmethionine binding site [chemical binding]; other site 351348002464 HemN family oxidoreductase; Provisional; Region: PRK05660 351348002465 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 351348002466 FeS/SAM binding site; other site 351348002467 HemN C-terminal domain; Region: HemN_C; pfam06969 351348002468 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 351348002469 active site 351348002470 dimerization interface [polypeptide binding]; other site 351348002471 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 351348002472 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 351348002473 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 351348002474 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 351348002475 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351348002476 Dynamin family; Region: Dynamin_N; pfam00350 351348002477 G1 box; other site 351348002478 GTP/Mg2+ binding site [chemical binding]; other site 351348002479 G2 box; other site 351348002480 Switch I region; other site 351348002481 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351348002482 G3 box; other site 351348002483 Switch II region; other site 351348002484 GTP/Mg2+ binding site [chemical binding]; other site 351348002485 G4 box; other site 351348002486 G5 box; other site 351348002487 YGGT family; Region: YGGT; pfam02325 351348002488 YGGT family; Region: YGGT; pfam02325 351348002489 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 351348002490 pyrroline-5-carboxylate reductase; Region: PLN02688 351348002491 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 351348002492 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348002493 catalytic residue [active] 351348002494 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351348002495 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 351348002496 Walker A motif; other site 351348002497 ATP binding site [chemical binding]; other site 351348002498 Walker B motif; other site 351348002499 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 351348002500 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 351348002501 Walker A motif; other site 351348002502 ATP binding site [chemical binding]; other site 351348002503 Walker B motif; other site 351348002504 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 351348002505 DNA polymerase I; Provisional; Region: PRK05755 351348002506 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 351348002507 active site 351348002508 metal binding site 1 [ion binding]; metal-binding site 351348002509 putative 5' ssDNA interaction site; other site 351348002510 metal binding site 3; metal-binding site 351348002511 metal binding site 2 [ion binding]; metal-binding site 351348002512 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 351348002513 putative DNA binding site [nucleotide binding]; other site 351348002514 putative metal binding site [ion binding]; other site 351348002515 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 351348002516 active site 351348002517 catalytic site [active] 351348002518 substrate binding site [chemical binding]; other site 351348002519 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 351348002520 active site 351348002521 DNA binding site [nucleotide binding] 351348002522 catalytic site [active] 351348002523 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 351348002524 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348002525 Interdomain contacts; other site 351348002526 Cytokine receptor motif; other site 351348002527 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348002528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348002529 active site 351348002530 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 351348002531 putative active site [active] 351348002532 putative catalytic site [active] 351348002533 putative DNA binding site [nucleotide binding]; other site 351348002534 putative phosphate binding site [ion binding]; other site 351348002535 metal binding site A [ion binding]; metal-binding site 351348002536 putative AP binding site [nucleotide binding]; other site 351348002537 putative metal binding site B [ion binding]; other site 351348002538 ribonuclease PH; Reviewed; Region: rph; PRK00173 351348002539 Ribonuclease PH; Region: RNase_PH_bact; cd11362 351348002540 hexamer interface [polypeptide binding]; other site 351348002541 active site 351348002542 hypothetical protein; Provisional; Region: PRK11820 351348002543 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 351348002544 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 351348002545 integrase; Provisional; Region: PRK09692 351348002546 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348002547 active site 351348002548 Int/Topo IB signature motif; other site 351348002549 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 351348002550 Domain of unknown function (DUF927); Region: DUF927; pfam06048 351348002551 DNA binding domain, excisionase family; Region: excise; TIGR01764 351348002552 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 351348002553 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 351348002554 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351348002555 Divergent AAA domain; Region: AAA_4; pfam04326 351348002556 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351348002557 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; cl17220 351348002558 putative DNA binding site [nucleotide binding]; other site 351348002559 putative Zn2+ binding site [ion binding]; other site 351348002560 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 351348002561 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 351348002562 ATP binding site [chemical binding]; other site 351348002563 putative Mg++ binding site [ion binding]; other site 351348002564 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 351348002565 nucleotide binding region [chemical binding]; other site 351348002566 ATP-binding site [chemical binding]; other site 351348002567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348002568 active site 351348002569 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 351348002570 DNA protecting protein DprA; Region: dprA; TIGR00732 351348002571 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348002572 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 351348002573 Predicted ATPase [General function prediction only]; Region: COG4637 351348002574 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348002575 Walker A/P-loop; other site 351348002576 ATP binding site [chemical binding]; other site 351348002577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348002578 Walker B; other site 351348002579 D-loop; other site 351348002580 H-loop/switch region; other site 351348002581 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 351348002582 TIGR02687 family protein; Region: TIGR02687 351348002583 PglZ domain; Region: PglZ; pfam08665 351348002584 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 351348002585 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 351348002586 AAA domain; Region: AAA_13; pfam13166 351348002587 exonuclease subunit SbcD; Provisional; Region: PRK10966 351348002588 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 351348002589 active site 351348002590 metal binding site [ion binding]; metal-binding site 351348002591 DNA binding site [nucleotide binding] 351348002592 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 351348002593 exonuclease subunit SbcC; Provisional; Region: PRK10246 351348002594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348002595 Walker A/P-loop; other site 351348002596 ATP binding site [chemical binding]; other site 351348002597 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 351348002598 ABC transporter signature motif; other site 351348002599 Walker B; other site 351348002600 D-loop; other site 351348002601 H-loop/switch region; other site 351348002602 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348002603 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 351348002604 catalytic residues [active] 351348002605 catalytic nucleophile [active] 351348002606 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351348002607 transcriptional regulator SlyA; Provisional; Region: PRK03573 351348002608 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 351348002609 Ligand Binding Site [chemical binding]; other site 351348002610 Transcriptional regulators [Transcription]; Region: MarR; COG1846 351348002611 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 351348002612 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 351348002613 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 351348002614 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348002615 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348002616 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351348002617 Protein export membrane protein; Region: SecD_SecF; cl14618 351348002618 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 351348002619 Predicted transcriptional regulators [Transcription]; Region: COG1510 351348002620 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348002621 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 351348002622 putative C-terminal domain interface [polypeptide binding]; other site 351348002623 putative GSH binding site (G-site) [chemical binding]; other site 351348002624 putative dimer interface [polypeptide binding]; other site 351348002625 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 351348002626 N-terminal domain interface [polypeptide binding]; other site 351348002627 dimer interface [polypeptide binding]; other site 351348002628 substrate binding pocket (H-site) [chemical binding]; other site 351348002629 Transcriptional activator [Transcription]; Region: ChrR; COG3806 351348002630 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348002631 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348002632 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348002633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348002634 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 351348002635 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351348002636 active site 351348002637 catalytic tetrad [active] 351348002638 MltA-interacting protein MipA; Region: MipA; cl01504 351348002639 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348002640 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348002641 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348002642 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348002643 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351348002644 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348002645 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 351348002646 catalytic site [active] 351348002647 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 351348002648 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 351348002649 CoenzymeA binding site [chemical binding]; other site 351348002650 subunit interaction site [polypeptide binding]; other site 351348002651 PHB binding site; other site 351348002652 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 351348002653 CoenzymeA binding site [chemical binding]; other site 351348002654 subunit interaction site [polypeptide binding]; other site 351348002655 PHB binding site; other site 351348002656 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348002657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348002658 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 351348002659 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348002660 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348002661 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348002662 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348002663 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348002664 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 351348002665 Walker A motif; other site 351348002666 ATP binding site [chemical binding]; other site 351348002667 Walker B motif; other site 351348002668 arginine finger; other site 351348002669 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; cl17257 351348002670 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348002671 Integrase core domain; Region: rve; pfam00665 351348002672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348002673 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 351348002674 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 351348002675 catalytic loop [active] 351348002676 iron binding site [ion binding]; other site 351348002677 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 351348002678 Cytochrome P450; Region: p450; cl12078 351348002679 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 351348002680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348002681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348002682 Winged helix-turn helix; Region: HTH_29; pfam13551 351348002683 Helix-turn-helix domain; Region: HTH_28; pfam13518 351348002684 Winged helix-turn helix; Region: HTH_33; pfam13592 351348002685 DDE superfamily endonuclease; Region: DDE_3; pfam13358 351348002686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 351348002687 Transposase domain (DUF772); Region: DUF772; pfam05598 351348002688 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 351348002689 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 351348002690 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348002691 Transposase domain (DUF772); Region: DUF772; pfam05598 351348002692 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 351348002693 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 351348002694 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348002695 putative acyl-CoA synthetase; Provisional; Region: PRK06018 351348002696 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 351348002697 dimer interface [polypeptide binding]; other site 351348002698 acyl-activating enzyme (AAE) consensus motif; other site 351348002699 putative active site [active] 351348002700 AMP binding site [chemical binding]; other site 351348002701 putative CoA binding site [chemical binding]; other site 351348002702 choline dehydrogenase; Validated; Region: PRK02106 351348002703 lycopene cyclase; Region: lycopene_cycl; TIGR01789 351348002704 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 351348002705 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 351348002706 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 351348002707 NAD(P) binding site [chemical binding]; other site 351348002708 catalytic residues [active] 351348002709 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 351348002710 Rubredoxin; Region: Rubredoxin; pfam00301 351348002711 iron binding site [ion binding]; other site 351348002712 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 351348002713 Rubredoxin; Region: Rubredoxin; pfam00301 351348002714 iron binding site [ion binding]; other site 351348002715 Winged helix-turn helix; Region: HTH_29; pfam13551 351348002716 Helix-turn-helix domain; Region: HTH_28; pfam13518 351348002717 Winged helix-turn helix; Region: HTH_33; pfam13592 351348002718 DDE superfamily endonuclease; Region: DDE_3; pfam13358 351348002719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 351348002720 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 351348002721 Fatty acid desaturase; Region: FA_desaturase; pfam00487 351348002722 Di-iron ligands [ion binding]; other site 351348002723 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 351348002724 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351348002725 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 351348002726 DNA binding residues [nucleotide binding] 351348002727 dimerization interface [polypeptide binding]; other site 351348002728 Bacterial Ig-like domain; Region: Big_5; pfam13205 351348002729 Bacterial Ig-like domain; Region: Big_5; pfam13205 351348002730 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 351348002731 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 351348002732 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 351348002733 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 351348002734 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 351348002735 putative substrate translocation pore; other site 351348002736 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 351348002737 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 351348002738 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348002739 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348002740 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351348002741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348002742 DNA-binding site [nucleotide binding]; DNA binding site 351348002743 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 351348002744 Ligand Binding Site [chemical binding]; other site 351348002745 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 351348002746 RelB antitoxin; Region: RelB; cl01171 351348002747 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 351348002748 substrate binding site [chemical binding]; other site 351348002749 dimerization interface [polypeptide binding]; other site 351348002750 active site 351348002751 calcium binding site [ion binding]; other site 351348002752 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 351348002753 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351348002754 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351348002755 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 351348002756 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 351348002757 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348002758 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 351348002759 Ligand Binding Site [chemical binding]; other site 351348002760 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 351348002761 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 351348002762 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348002763 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348002764 catalytic residues [active] 351348002765 catalytic nucleophile [active] 351348002766 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348002767 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348002768 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348002769 Synaptic Site I dimer interface [polypeptide binding]; other site 351348002770 DNA binding site [nucleotide binding] 351348002771 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 351348002772 DNA-binding interface [nucleotide binding]; DNA binding site 351348002773 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348002774 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351348002775 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 351348002776 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 351348002777 dimerization interface [polypeptide binding]; other site 351348002778 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348002779 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348002780 dimer interface [polypeptide binding]; other site 351348002781 putative CheW interface [polypeptide binding]; other site 351348002782 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 351348002783 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 351348002784 catalytic site [active] 351348002785 G-X2-G-X-G-K; other site 351348002786 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 351348002787 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 351348002788 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348002789 Zn2+ binding site [ion binding]; other site 351348002790 Mg2+ binding site [ion binding]; other site 351348002791 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 351348002792 synthetase active site [active] 351348002793 NTP binding site [chemical binding]; other site 351348002794 metal binding site [ion binding]; metal-binding site 351348002795 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 351348002796 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 351348002797 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 351348002798 homotrimer interaction site [polypeptide binding]; other site 351348002799 putative active site [active] 351348002800 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351348002801 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 351348002802 putative NAD(P) binding site [chemical binding]; other site 351348002803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348002804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348002805 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 351348002806 dimerization interface [polypeptide binding]; other site 351348002807 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 351348002808 Y-family of DNA polymerases; Region: PolY; cl12025 351348002809 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 351348002810 generic binding surface II; other site 351348002811 ssDNA binding site; other site 351348002812 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 351348002813 ATP binding site [chemical binding]; other site 351348002814 putative Mg++ binding site [ion binding]; other site 351348002815 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 351348002816 nucleotide binding region [chemical binding]; other site 351348002817 ATP-binding site [chemical binding]; other site 351348002818 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 351348002819 putative deacylase active site [active] 351348002820 HDOD domain; Region: HDOD; pfam08668 351348002821 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 351348002822 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 351348002823 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 351348002824 putative [Fe4-S4] binding site [ion binding]; other site 351348002825 putative molybdopterin cofactor binding site [chemical binding]; other site 351348002826 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 351348002827 putative molybdopterin cofactor binding site; other site 351348002828 Bacterial Ig-like domain; Region: Big_5; pfam13205 351348002829 Bacterial Ig-like domain; Region: Big_5; pfam13205 351348002830 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 351348002831 putative transposase OrfB; Reviewed; Region: PHA02517 351348002832 HTH-like domain; Region: HTH_21; pfam13276 351348002833 Integrase core domain; Region: rve; pfam00665 351348002834 Integrase core domain; Region: rve_3; pfam13683 351348002835 Transposase; Region: HTH_Tnp_1; pfam01527 351348002836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348002837 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 351348002838 Domain of unknown function (DUF927); Region: DUF927; pfam06048 351348002839 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 351348002840 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 351348002841 integrase; Provisional; Region: PRK09692 351348002842 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348002843 active site 351348002844 Int/Topo IB signature motif; other site 351348002845 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 351348002846 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 351348002847 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351348002848 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 351348002849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348002850 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351348002851 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 351348002852 DNA binding residues [nucleotide binding] 351348002853 DNA primase, catalytic core; Region: dnaG; TIGR01391 351348002854 CHC2 zinc finger; Region: zf-CHC2; pfam01807 351348002855 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 351348002856 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 351348002857 active site 351348002858 metal binding site [ion binding]; metal-binding site 351348002859 interdomain interaction site; other site 351348002860 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 351348002861 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 351348002862 UGMP family protein; Validated; Region: PRK09604 351348002863 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 351348002864 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 351348002865 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 351348002866 active site 351348002867 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 351348002868 catalytic center binding site [active] 351348002869 ATP binding site [chemical binding]; other site 351348002870 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 351348002871 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 351348002872 active site 351348002873 dimer interface [polypeptide binding]; other site 351348002874 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 351348002875 dimer interface [polypeptide binding]; other site 351348002876 active site 351348002877 pantoate--beta-alanine ligase; Region: panC; TIGR00018 351348002878 Pantoate-beta-alanine ligase; Region: PanC; cd00560 351348002879 active site 351348002880 ATP-binding site [chemical binding]; other site 351348002881 pantoate-binding site; other site 351348002882 HXXH motif; other site 351348002883 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 351348002884 oligomerization interface [polypeptide binding]; other site 351348002885 active site 351348002886 metal binding site [ion binding]; metal-binding site 351348002887 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 351348002888 catalytic center binding site [active] 351348002889 ATP binding site [chemical binding]; other site 351348002890 poly(A) polymerase; Region: pcnB; TIGR01942 351348002891 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351348002892 active site 351348002893 NTP binding site [chemical binding]; other site 351348002894 metal binding triad [ion binding]; metal-binding site 351348002895 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351348002896 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 351348002897 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348002898 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 351348002899 active site 351348002900 phosphorylation site [posttranslational modification] 351348002901 intermolecular recognition site; other site 351348002902 dimerization interface [polypeptide binding]; other site 351348002903 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 351348002904 Walker A motif; other site 351348002905 ATP binding site [chemical binding]; other site 351348002906 Walker B motif; other site 351348002907 arginine finger; other site 351348002908 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 351348002909 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 351348002910 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351348002911 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 351348002912 putative active site [active] 351348002913 heme pocket [chemical binding]; other site 351348002914 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 351348002915 dimer interface [polypeptide binding]; other site 351348002916 phosphorylation site [posttranslational modification] 351348002917 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 351348002918 ATP binding site [chemical binding]; other site 351348002919 Mg2+ binding site [ion binding]; other site 351348002920 G-X-G motif; other site 351348002921 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 351348002922 active site 351348002923 HIGH motif; other site 351348002924 nucleotide binding site [chemical binding]; other site 351348002925 KMSKS motif; other site 351348002926 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 351348002927 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 351348002928 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 351348002929 iron-sulfur cluster [ion binding]; other site 351348002930 [2Fe-2S] cluster binding site [ion binding]; other site 351348002931 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 351348002932 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 351348002933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 351348002934 Predicted kinase [General function prediction only]; Region: COG0645 351348002935 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348002936 active site 351348002937 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 351348002938 Transglycosylase; Region: Transgly; pfam00912 351348002939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 351348002940 TPR repeat; Region: TPR_11; pfam13414 351348002941 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 351348002942 TPR motif; other site 351348002943 binding surface 351348002944 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 351348002945 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348002946 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348002947 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 351348002948 DNA binding residues [nucleotide binding] 351348002949 Putative zinc-finger; Region: zf-HC2; pfam13490 351348002950 TPR repeat; Region: TPR_11; pfam13414 351348002951 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 351348002952 binding surface 351348002953 TPR motif; other site 351348002954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 351348002955 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 351348002956 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 351348002957 inhibitor-cofactor binding pocket; inhibition site 351348002958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348002959 catalytic residue [active] 351348002960 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 351348002961 thiamine phosphate binding site [chemical binding]; other site 351348002962 active site 351348002963 pyrophosphate binding site [ion binding]; other site 351348002964 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 351348002965 substrate binding site [chemical binding]; other site 351348002966 dimer interface [polypeptide binding]; other site 351348002967 ATP binding site [chemical binding]; other site 351348002968 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 351348002969 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 351348002970 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 351348002971 Cl- selectivity filter; other site 351348002972 Cl- binding residues [ion binding]; other site 351348002973 pore gating glutamate residue; other site 351348002974 dimer interface [polypeptide binding]; other site 351348002975 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 351348002976 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351348002977 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 351348002978 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 351348002979 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 351348002980 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 351348002981 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 351348002982 putative peptidase; Provisional; Region: PRK11649 351348002983 Peptidase family M23; Region: Peptidase_M23; pfam01551 351348002984 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 351348002985 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 351348002986 active site 351348002987 HIGH motif; other site 351348002988 dimer interface [polypeptide binding]; other site 351348002989 KMSKS motif; other site 351348002990 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 351348002991 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 351348002992 dimerization interface [polypeptide binding]; other site 351348002993 putative Zn2+ binding site [ion binding]; other site 351348002994 putative DNA binding site [nucleotide binding]; other site 351348002995 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 351348002996 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 351348002997 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 351348002998 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 351348002999 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 351348003000 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 351348003001 putative homodimer interface [polypeptide binding]; other site 351348003002 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 351348003003 heterodimer interface [polypeptide binding]; other site 351348003004 homodimer interface [polypeptide binding]; other site 351348003005 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 351348003006 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 351348003007 23S rRNA interface [nucleotide binding]; other site 351348003008 L7/L12 interface [polypeptide binding]; other site 351348003009 putative thiostrepton binding site; other site 351348003010 L25 interface [polypeptide binding]; other site 351348003011 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 351348003012 mRNA/rRNA interface [nucleotide binding]; other site 351348003013 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 351348003014 23S rRNA interface [nucleotide binding]; other site 351348003015 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 351348003016 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 351348003017 L11 interface [polypeptide binding]; other site 351348003018 putative EF-Tu interaction site [polypeptide binding]; other site 351348003019 putative EF-G interaction site [polypeptide binding]; other site 351348003020 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 351348003021 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 351348003022 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 351348003023 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 351348003024 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 351348003025 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 351348003026 RPB3 interaction site [polypeptide binding]; other site 351348003027 RPB1 interaction site [polypeptide binding]; other site 351348003028 RPB11 interaction site [polypeptide binding]; other site 351348003029 RPB10 interaction site [polypeptide binding]; other site 351348003030 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 351348003031 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 351348003032 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 351348003033 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 351348003034 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 351348003035 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 351348003036 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 351348003037 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 351348003038 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 351348003039 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 351348003040 DNA binding site [nucleotide binding] 351348003041 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 351348003042 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 351348003043 S17 interaction site [polypeptide binding]; other site 351348003044 S8 interaction site; other site 351348003045 16S rRNA interaction site [nucleotide binding]; other site 351348003046 streptomycin interaction site [chemical binding]; other site 351348003047 23S rRNA interaction site [nucleotide binding]; other site 351348003048 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 351348003049 30S ribosomal protein S7; Validated; Region: PRK05302 351348003050 elongation factor G; Reviewed; Region: PRK00007 351348003051 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 351348003052 G1 box; other site 351348003053 putative GEF interaction site [polypeptide binding]; other site 351348003054 GTP/Mg2+ binding site [chemical binding]; other site 351348003055 Switch I region; other site 351348003056 G2 box; other site 351348003057 G3 box; other site 351348003058 Switch II region; other site 351348003059 G4 box; other site 351348003060 G5 box; other site 351348003061 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 351348003062 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 351348003063 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 351348003064 elongation factor Tu; Reviewed; Region: PRK00049 351348003065 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 351348003066 G1 box; other site 351348003067 GEF interaction site [polypeptide binding]; other site 351348003068 GTP/Mg2+ binding site [chemical binding]; other site 351348003069 Switch I region; other site 351348003070 G2 box; other site 351348003071 G3 box; other site 351348003072 Switch II region; other site 351348003073 G4 box; other site 351348003074 G5 box; other site 351348003075 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 351348003076 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 351348003077 Antibiotic Binding Site [chemical binding]; other site 351348003078 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 351348003079 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 351348003080 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 351348003081 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 351348003082 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 351348003083 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 351348003084 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 351348003085 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 351348003086 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 351348003087 protein-rRNA interface [nucleotide binding]; other site 351348003088 putative translocon binding site; other site 351348003089 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 351348003090 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 351348003091 G-X-X-G motif; other site 351348003092 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 351348003093 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 351348003094 23S rRNA interface [nucleotide binding]; other site 351348003095 5S rRNA interface [nucleotide binding]; other site 351348003096 putative antibiotic binding site [chemical binding]; other site 351348003097 L25 interface [polypeptide binding]; other site 351348003098 L27 interface [polypeptide binding]; other site 351348003099 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 351348003100 23S rRNA interface [nucleotide binding]; other site 351348003101 putative translocon interaction site; other site 351348003102 signal recognition particle (SRP54) interaction site; other site 351348003103 L23 interface [polypeptide binding]; other site 351348003104 trigger factor interaction site; other site 351348003105 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 351348003106 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 351348003107 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 351348003108 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 351348003109 RNA binding site [nucleotide binding]; other site 351348003110 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 351348003111 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 351348003112 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 351348003113 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 351348003114 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 351348003115 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 351348003116 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351348003117 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351348003118 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 351348003119 5S rRNA interface [nucleotide binding]; other site 351348003120 23S rRNA interface [nucleotide binding]; other site 351348003121 L5 interface [polypeptide binding]; other site 351348003122 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 351348003123 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 351348003124 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 351348003125 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 351348003126 23S rRNA binding site [nucleotide binding]; other site 351348003127 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 351348003128 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 351348003129 SecY translocase; Region: SecY; pfam00344 351348003130 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 351348003131 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 351348003132 30S ribosomal protein S13; Region: bact_S13; TIGR03631 351348003133 30S ribosomal protein S11; Validated; Region: PRK05309 351348003134 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 351348003135 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 351348003136 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 351348003137 RNA binding surface [nucleotide binding]; other site 351348003138 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 351348003139 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 351348003140 alphaNTD homodimer interface [polypeptide binding]; other site 351348003141 alphaNTD - beta interaction site [polypeptide binding]; other site 351348003142 alphaNTD - beta' interaction site [polypeptide binding]; other site 351348003143 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 351348003144 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 351348003145 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 351348003146 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351348003147 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351348003148 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 351348003149 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 351348003150 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351348003151 putative substrate translocation pore; other site 351348003152 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 351348003153 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 351348003154 dimer interface [polypeptide binding]; other site 351348003155 ssDNA binding site [nucleotide binding]; other site 351348003156 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351348003157 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 351348003158 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 351348003159 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 351348003160 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 351348003161 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351348003162 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351348003163 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 351348003164 Walker A motif; other site 351348003165 ATP binding site [chemical binding]; other site 351348003166 Walker B motif; other site 351348003167 arginine finger; other site 351348003168 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348003169 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 351348003170 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 351348003171 Walker A motif; other site 351348003172 ATP binding site [chemical binding]; other site 351348003173 Walker B motif; other site 351348003174 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351348003175 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348003176 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348003177 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351348003178 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351348003179 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351348003180 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351348003181 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 351348003182 PilX N-terminal; Region: PilX_N; pfam14341 351348003183 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 351348003184 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 351348003185 active site 351348003186 phosphorylation site [posttranslational modification] 351348003187 intermolecular recognition site; other site 351348003188 dimerization interface [polypeptide binding]; other site 351348003189 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 351348003190 Walker A motif; other site 351348003191 ATP binding site [chemical binding]; other site 351348003192 Walker B motif; other site 351348003193 arginine finger; other site 351348003194 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348003195 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351348003196 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 351348003197 dimer interface [polypeptide binding]; other site 351348003198 phosphorylation site [posttranslational modification] 351348003199 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 351348003200 ATP binding site [chemical binding]; other site 351348003201 G-X-G motif; other site 351348003202 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348003203 glutamine synthetase; Provisional; Region: glnA; PRK09469 351348003204 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351348003205 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351348003206 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 351348003207 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 351348003208 G1 box; other site 351348003209 putative GEF interaction site [polypeptide binding]; other site 351348003210 GTP/Mg2+ binding site [chemical binding]; other site 351348003211 Switch I region; other site 351348003212 G2 box; other site 351348003213 G3 box; other site 351348003214 Switch II region; other site 351348003215 G4 box; other site 351348003216 G5 box; other site 351348003217 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 351348003218 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 351348003219 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 351348003220 TAP-like protein; Region: Abhydrolase_4; pfam08386 351348003221 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 351348003222 putative active site [active] 351348003223 dimerization interface [polypeptide binding]; other site 351348003224 putative tRNAtyr binding site [nucleotide binding]; other site 351348003225 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 351348003226 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 351348003227 eyelet of channel; other site 351348003228 trimer interface [polypeptide binding]; other site 351348003229 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 351348003230 putative active site [active] 351348003231 putative metal binding residues [ion binding]; other site 351348003232 signature motif; other site 351348003233 putative triphosphate binding site [ion binding]; other site 351348003234 Ion channel; Region: Ion_trans_2; pfam07885 351348003235 Ion transport protein; Region: Ion_trans; pfam00520 351348003236 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 351348003237 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351348003238 metal binding triad; other site 351348003239 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351348003240 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351348003241 metal binding triad; other site 351348003242 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 351348003243 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 351348003244 homodimer interface [polypeptide binding]; other site 351348003245 substrate-cofactor binding pocket; other site 351348003246 catalytic residue [active] 351348003247 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 351348003248 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 351348003249 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 351348003250 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 351348003251 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 351348003252 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 351348003253 active site 351348003254 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 351348003255 active site 351348003256 motif I; other site 351348003257 motif II; other site 351348003258 Phosphotransferase enzyme family; Region: APH; pfam01636 351348003259 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; cl17270 351348003260 substrate binding site [chemical binding]; other site 351348003261 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 351348003262 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 351348003263 active site 351348003264 motif I; other site 351348003265 motif II; other site 351348003266 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351348003267 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 351348003268 putative active site [active] 351348003269 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 351348003270 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 351348003271 putative ribose interaction site [chemical binding]; other site 351348003272 putative ADP binding site [chemical binding]; other site 351348003273 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 351348003274 active site 351348003275 nucleotide binding site [chemical binding]; other site 351348003276 HIGH motif; other site 351348003277 KMSKS motif; other site 351348003278 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 351348003279 dimer interface [polypeptide binding]; other site 351348003280 active site 351348003281 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 351348003282 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 351348003283 NADP binding site [chemical binding]; other site 351348003284 homopentamer interface [polypeptide binding]; other site 351348003285 substrate binding site [chemical binding]; other site 351348003286 active site 351348003287 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 351348003288 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 351348003289 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 351348003290 putative active site [active] 351348003291 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351348003292 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 351348003293 putative metal binding site; other site 351348003294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348003295 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 351348003296 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348003297 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 351348003298 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 351348003299 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 351348003300 putative acyl-acceptor binding pocket; other site 351348003301 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 351348003302 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 351348003303 Substrate binding site; other site 351348003304 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 351348003305 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 351348003306 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; cd00229 351348003307 catalytic triad [active] 351348003308 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348003309 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 351348003310 putative ADP-binding pocket [chemical binding]; other site 351348003311 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348003312 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 351348003313 putative ADP-binding pocket [chemical binding]; other site 351348003314 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 351348003315 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 351348003316 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 351348003317 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 351348003318 putative acyl-acceptor binding pocket; other site 351348003319 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 351348003320 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 351348003321 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 351348003322 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 351348003323 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 351348003324 ThiC-associated domain; Region: ThiC-associated; pfam13667 351348003325 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 351348003326 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 351348003327 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 351348003328 dimer interface [polypeptide binding]; other site 351348003329 ADP-ribose binding site [chemical binding]; other site 351348003330 active site 351348003331 nudix motif; other site 351348003332 metal binding site [ion binding]; metal-binding site 351348003333 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 351348003334 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 351348003335 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348003336 active site 351348003337 metal binding site [ion binding]; metal-binding site 351348003338 hexamer interface [polypeptide binding]; other site 351348003339 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 351348003340 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 351348003341 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 351348003342 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 351348003343 THF binding site; other site 351348003344 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 351348003345 substrate binding site [chemical binding]; other site 351348003346 THF binding site; other site 351348003347 zinc-binding site [ion binding]; other site 351348003348 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 351348003349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348003350 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 351348003351 putative dimerization interface [polypeptide binding]; other site 351348003352 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 351348003353 lipoyl attachment site [posttranslational modification]; other site 351348003354 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 351348003355 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 351348003356 putative RNA binding site [nucleotide binding]; other site 351348003357 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 351348003358 S-adenosylmethionine binding site [chemical binding]; other site 351348003359 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 351348003360 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 351348003361 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 351348003362 motif II; other site 351348003363 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 351348003364 putative active site [active] 351348003365 Ap4A binding site [chemical binding]; other site 351348003366 nudix motif; other site 351348003367 putative metal binding site [ion binding]; other site 351348003368 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 351348003369 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351348003370 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 351348003371 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351348003372 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351348003373 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 351348003374 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 351348003375 nucleophile elbow; other site 351348003376 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 351348003377 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 351348003378 Walker A motif; other site 351348003379 ATP binding site [chemical binding]; other site 351348003380 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 351348003381 Walker B motif; other site 351348003382 arginine finger; other site 351348003383 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 351348003384 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 351348003385 active site 351348003386 HslU subunit interaction site [polypeptide binding]; other site 351348003387 Sporulation related domain; Region: SPOR; pfam05036 351348003388 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 351348003389 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 351348003390 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 351348003391 active site 351348003392 HIGH motif; other site 351348003393 KMSK motif region; other site 351348003394 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 351348003395 tRNA binding surface [nucleotide binding]; other site 351348003396 anticodon binding site; other site 351348003397 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 351348003398 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 351348003399 primosome assembly protein PriA; Validated; Region: PRK05580 351348003400 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 351348003401 ATP binding site [chemical binding]; other site 351348003402 putative Mg++ binding site [ion binding]; other site 351348003403 helicase superfamily c-terminal domain; Region: HELICc; smart00490 351348003404 ATP-binding site [chemical binding]; other site 351348003405 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 351348003406 Malic enzyme, N-terminal domain; Region: malic; pfam00390 351348003407 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 351348003408 putative NAD(P) binding site [chemical binding]; other site 351348003409 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 351348003410 Transglycosylase; Region: Transgly; pfam00912 351348003411 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 351348003412 Competence protein A; Region: Competence_A; pfam11104 351348003413 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348003414 nucleotide binding site [chemical binding]; other site 351348003415 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 351348003416 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 351348003417 Pilus assembly protein, PilO; Region: PilO; pfam04350 351348003418 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 351348003419 Pilus assembly protein, PilP; Region: PilP; pfam04351 351348003420 AMIN domain; Region: AMIN; pfam11741 351348003421 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 351348003422 Secretin and TonB N terminus short domain; Region: STN; smart00965 351348003423 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351348003424 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351348003425 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 351348003426 active site 351348003427 dimer interface [polypeptide binding]; other site 351348003428 metal binding site [ion binding]; metal-binding site 351348003429 AAA domain; Region: AAA_30; pfam13604 351348003430 AAA domain; Region: AAA_22; pfam13401 351348003431 cell division protein DamX; Validated; Region: PRK10905 351348003432 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 351348003433 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 351348003434 active site 351348003435 dimer interface [polypeptide binding]; other site 351348003436 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 351348003437 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 351348003438 active site 351348003439 FMN binding site [chemical binding]; other site 351348003440 substrate binding site [chemical binding]; other site 351348003441 3Fe-4S cluster binding site [ion binding]; other site 351348003442 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 351348003443 domain interface; other site 351348003444 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 351348003445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348003446 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348003447 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 351348003448 substrate binding site [chemical binding]; other site 351348003449 active site 351348003450 PilZ domain; Region: PilZ; pfam07238 351348003451 DNA repair protein RadA; Provisional; Region: PRK11823 351348003452 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 351348003453 Walker A motif/ATP binding site; other site 351348003454 ATP binding site [chemical binding]; other site 351348003455 Walker B motif; other site 351348003456 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 351348003457 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 351348003458 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348003459 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348003460 ABC transporter; Region: ABC_tran_2; pfam12848 351348003461 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348003462 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 351348003463 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 351348003464 dimer interface [polypeptide binding]; other site 351348003465 active site 351348003466 glycine-pyridoxal phosphate binding site [chemical binding]; other site 351348003467 folate binding site [chemical binding]; other site 351348003468 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 351348003469 ATP cone domain; Region: ATP-cone; pfam03477 351348003470 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 351348003471 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 351348003472 catalytic motif [active] 351348003473 Zn binding site [ion binding]; other site 351348003474 RibD C-terminal domain; Region: RibD_C; cl17279 351348003475 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 351348003476 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 351348003477 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 351348003478 dimerization interface [polypeptide binding]; other site 351348003479 active site 351348003480 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 351348003481 homopentamer interface [polypeptide binding]; other site 351348003482 active site 351348003483 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 351348003484 putative RNA binding site [nucleotide binding]; other site 351348003485 thiamine monophosphate kinase; Provisional; Region: PRK05731 351348003486 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 351348003487 ATP binding site [chemical binding]; other site 351348003488 dimerization interface [polypeptide binding]; other site 351348003489 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 351348003490 tetramer interfaces [polypeptide binding]; other site 351348003491 binuclear metal-binding site [ion binding]; other site 351348003492 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 351348003493 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351348003494 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351348003495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348003496 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 351348003497 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 351348003498 dimerization interface [polypeptide binding]; other site 351348003499 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 351348003500 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 351348003501 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 351348003502 putative dimer interface [polypeptide binding]; other site 351348003503 N-terminal domain interface [polypeptide binding]; other site 351348003504 putative substrate binding pocket (H-site) [chemical binding]; other site 351348003505 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351348003506 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351348003507 substrate binding pocket [chemical binding]; other site 351348003508 chain length determination region; other site 351348003509 substrate-Mg2+ binding site; other site 351348003510 catalytic residues [active] 351348003511 aspartate-rich region 1; other site 351348003512 active site lid residues [active] 351348003513 aspartate-rich region 2; other site 351348003514 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 351348003515 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 351348003516 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 351348003517 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 351348003518 GTP1/OBG; Region: GTP1_OBG; pfam01018 351348003519 Obg GTPase; Region: Obg; cd01898 351348003520 G1 box; other site 351348003521 GTP/Mg2+ binding site [chemical binding]; other site 351348003522 Switch I region; other site 351348003523 G2 box; other site 351348003524 G3 box; other site 351348003525 Switch II region; other site 351348003526 G4 box; other site 351348003527 G5 box; other site 351348003528 gamma-glutamyl kinase; Provisional; Region: PRK05429 351348003529 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 351348003530 nucleotide binding site [chemical binding]; other site 351348003531 homotetrameric interface [polypeptide binding]; other site 351348003532 putative phosphate binding site [ion binding]; other site 351348003533 putative allosteric binding site; other site 351348003534 PUA domain; Region: PUA; pfam01472 351348003535 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 351348003536 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 351348003537 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 351348003538 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 351348003539 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 351348003540 active site 351348003541 Riboflavin kinase; Region: Flavokinase; smart00904 351348003542 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 351348003543 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351348003544 active site 351348003545 HIGH motif; other site 351348003546 nucleotide binding site [chemical binding]; other site 351348003547 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351348003548 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 351348003549 active site 351348003550 KMSKS motif; other site 351348003551 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 351348003552 tRNA binding surface [nucleotide binding]; other site 351348003553 anticodon binding site; other site 351348003554 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 351348003555 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 351348003556 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 351348003557 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348003558 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 351348003559 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 351348003560 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 351348003561 Type II transport protein GspH; Region: GspH; pfam12019 351348003562 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 351348003563 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351348003564 PilX N-terminal; Region: PilX_N; pfam14341 351348003565 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 351348003566 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 351348003567 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 351348003568 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 351348003569 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351348003570 Type II transport protein GspH; Region: GspH; pfam12019 351348003571 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348003572 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 351348003573 active site 351348003574 phosphorylation site [posttranslational modification] 351348003575 intermolecular recognition site; other site 351348003576 dimerization interface [polypeptide binding]; other site 351348003577 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 351348003578 Walker A motif; other site 351348003579 ATP binding site [chemical binding]; other site 351348003580 Walker B motif; other site 351348003581 arginine finger; other site 351348003582 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348003583 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351348003584 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 351348003585 dimer interface [polypeptide binding]; other site 351348003586 phosphorylation site [posttranslational modification] 351348003587 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 351348003588 ATP binding site [chemical binding]; other site 351348003589 Mg2+ binding site [ion binding]; other site 351348003590 G-X-G motif; other site 351348003591 NAD synthetase; Provisional; Region: PRK13981 351348003592 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 351348003593 multimer interface [polypeptide binding]; other site 351348003594 active site 351348003595 catalytic triad [active] 351348003596 protein interface 1 [polypeptide binding]; other site 351348003597 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 351348003598 homodimer interface [polypeptide binding]; other site 351348003599 NAD binding pocket [chemical binding]; other site 351348003600 ATP binding pocket [chemical binding]; other site 351348003601 Mg binding site [ion binding]; other site 351348003602 active-site loop [active] 351348003603 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 351348003604 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 351348003605 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 351348003606 RNA binding surface [nucleotide binding]; other site 351348003607 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351348003608 active site 351348003609 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 351348003610 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 351348003611 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 351348003612 Clp amino terminal domain; Region: Clp_N; pfam02861 351348003613 Clp amino terminal domain; Region: Clp_N; pfam02861 351348003614 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 351348003615 Walker A motif; other site 351348003616 ATP binding site [chemical binding]; other site 351348003617 Walker B motif; other site 351348003618 arginine finger; other site 351348003619 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 351348003620 Walker A motif; other site 351348003621 ATP binding site [chemical binding]; other site 351348003622 Walker B motif; other site 351348003623 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351348003624 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348003625 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 351348003626 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351348003627 PYR/PP interface [polypeptide binding]; other site 351348003628 dimer interface [polypeptide binding]; other site 351348003629 TPP binding site [chemical binding]; other site 351348003630 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351348003631 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 351348003632 TPP-binding site [chemical binding]; other site 351348003633 dimer interface [polypeptide binding]; other site 351348003634 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 351348003635 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 351348003636 putative valine binding site [chemical binding]; other site 351348003637 dimer interface [polypeptide binding]; other site 351348003638 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 351348003639 ketol-acid reductoisomerase; Provisional; Region: PRK05479 351348003640 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 351348003641 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 351348003642 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 351348003643 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 351348003644 TMAO/DMSO reductase; Reviewed; Region: PRK05363 351348003645 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 351348003646 Moco binding site; other site 351348003647 metal coordination site [ion binding]; other site 351348003648 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 351348003649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351348003650 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348003651 lipoprotein signal peptidase; Provisional; Region: PRK14776 351348003652 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348003653 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348003654 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348003655 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 351348003656 Walker A motif; other site 351348003657 ATP binding site [chemical binding]; other site 351348003658 Walker B motif; other site 351348003659 arginine finger; other site 351348003660 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348003661 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348003662 DNA binding residues [nucleotide binding] 351348003663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348003664 Integrase core domain; Region: rve; pfam00665 351348003665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348003666 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 351348003667 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 351348003668 DNA binding residues [nucleotide binding] 351348003669 dimer interface [polypeptide binding]; other site 351348003670 putative metal binding site [ion binding]; other site 351348003671 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 351348003672 Response regulator receiver domain; Region: Response_reg; pfam00072 351348003673 active site 351348003674 phosphorylation site [posttranslational modification] 351348003675 intermolecular recognition site; other site 351348003676 dimerization interface [polypeptide binding]; other site 351348003677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348003678 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 351348003679 ATP binding site [chemical binding]; other site 351348003680 Mg2+ binding site [ion binding]; other site 351348003681 G-X-G motif; other site 351348003682 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 351348003683 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 351348003684 active site 351348003685 phosphorylation site [posttranslational modification] 351348003686 intermolecular recognition site; other site 351348003687 dimerization interface [polypeptide binding]; other site 351348003688 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 351348003689 TPR motif; other site 351348003690 binding surface 351348003691 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351348003692 TPR repeat; Region: TPR_11; pfam13414 351348003693 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 351348003694 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 351348003695 Na binding site [ion binding]; other site 351348003696 PAS domain; Region: PAS; smart00091 351348003697 PAS fold; Region: PAS_7; pfam12860 351348003698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348003699 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 351348003700 dimer interface [polypeptide binding]; other site 351348003701 phosphorylation site [posttranslational modification] 351348003702 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 351348003703 ATP binding site [chemical binding]; other site 351348003704 Mg2+ binding site [ion binding]; other site 351348003705 G-X-G motif; other site 351348003706 Response regulator receiver domain; Region: Response_reg; pfam00072 351348003707 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 351348003708 active site 351348003709 phosphorylation site [posttranslational modification] 351348003710 intermolecular recognition site; other site 351348003711 dimerization interface [polypeptide binding]; other site 351348003712 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 351348003713 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 351348003714 Na binding site [ion binding]; other site 351348003715 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 351348003716 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 351348003717 active site 351348003718 catalytic site [active] 351348003719 substrate binding site [chemical binding]; other site 351348003720 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 351348003721 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 351348003722 ligand binding site [chemical binding]; other site 351348003723 flexible hinge region; other site 351348003724 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 351348003725 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351348003726 metal binding triad; other site 351348003727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 351348003728 Smr domain; Region: Smr; pfam01713 351348003729 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 351348003730 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 351348003731 catalytic loop [active] 351348003732 iron binding site [ion binding]; other site 351348003733 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 351348003734 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 351348003735 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351348003736 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 351348003737 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351348003738 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351348003739 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 351348003740 intersubunit interface [polypeptide binding]; other site 351348003741 active site 351348003742 Zn2+ binding site [ion binding]; other site 351348003743 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 351348003744 Cupin domain; Region: Cupin_2; cl17218 351348003745 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 351348003746 Protein of unknown function (DUF768); Region: DUF768; pfam05589 351348003747 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 351348003748 motif II; other site 351348003749 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 351348003750 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348003751 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 351348003752 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 351348003753 Walker A motif; other site 351348003754 ATP binding site [chemical binding]; other site 351348003755 Walker B motif; other site 351348003756 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 351348003757 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 351348003758 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351348003759 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 351348003760 ArsC family; Region: ArsC; pfam03960 351348003761 catalytic residues [active] 351348003762 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 351348003763 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348003764 catalytic residues [active] 351348003765 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 351348003766 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 351348003767 putative active site [active] 351348003768 putative PHP Thumb interface [polypeptide binding]; other site 351348003769 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 351348003770 generic binding surface II; other site 351348003771 generic binding surface I; other site 351348003772 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 351348003773 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 351348003774 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 351348003775 TilS substrate binding domain; Region: TilS; pfam09179 351348003776 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 351348003777 CTP synthetase; Validated; Region: pyrG; PRK05380 351348003778 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 351348003779 Catalytic site [active] 351348003780 active site 351348003781 UTP binding site [chemical binding]; other site 351348003782 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 351348003783 active site 351348003784 putative oxyanion hole; other site 351348003785 catalytic triad [active] 351348003786 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 351348003787 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 351348003788 enolase; Provisional; Region: eno; PRK00077 351348003789 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 351348003790 dimer interface [polypeptide binding]; other site 351348003791 metal binding site [ion binding]; metal-binding site 351348003792 substrate binding pocket [chemical binding]; other site 351348003793 Septum formation initiator; Region: DivIC; cl17659 351348003794 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 351348003795 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 351348003796 substrate binding site; other site 351348003797 dimer interface; other site 351348003798 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 351348003799 homotrimer interaction site [polypeptide binding]; other site 351348003800 zinc binding site [ion binding]; other site 351348003801 CDP-binding sites; other site 351348003802 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 351348003803 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 351348003804 Permutation of conserved domain; other site 351348003805 active site 351348003806 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 351348003807 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 351348003808 Methyltransferase domain; Region: Methyltransf_18; pfam12847 351348003809 S-adenosylmethionine binding site [chemical binding]; other site 351348003810 Domain of unknown function (DUF368); Region: DUF368; pfam04018 351348003811 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348003812 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 351348003813 E3 interaction surface; other site 351348003814 lipoyl attachment site [posttranslational modification]; other site 351348003815 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 351348003816 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351348003817 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348003818 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351348003819 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 351348003820 DNA binding residues [nucleotide binding] 351348003821 endonuclease III; Provisional; Region: PRK10702 351348003822 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351348003823 minor groove reading motif; other site 351348003824 helix-hairpin-helix signature motif; other site 351348003825 substrate binding pocket [chemical binding]; other site 351348003826 active site 351348003827 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 351348003828 electron transport complex RsxE subunit; Provisional; Region: PRK12405 351348003829 FMN-binding domain; Region: FMN_bind; cl01081 351348003830 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 351348003831 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 351348003832 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 351348003833 SLBB domain; Region: SLBB; pfam10531 351348003834 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 351348003835 ferredoxin; Provisional; Region: PRK08764 351348003836 Putative Fe-S cluster; Region: FeS; pfam04060 351348003837 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 351348003838 electron transport complex protein RsxA; Provisional; Region: PRK05151 351348003839 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 351348003840 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 351348003841 active site 351348003842 HIGH motif; other site 351348003843 KMSKS motif; other site 351348003844 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 351348003845 tRNA binding surface [nucleotide binding]; other site 351348003846 anticodon binding site; other site 351348003847 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 351348003848 dimer interface [polypeptide binding]; other site 351348003849 putative tRNA-binding site [nucleotide binding]; other site 351348003850 antiporter inner membrane protein; Provisional; Region: PRK11670 351348003851 Domain of unknown function DUF59; Region: DUF59; pfam01883 351348003852 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 351348003853 Walker A motif; other site 351348003854 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 351348003855 trimer interface [polypeptide binding]; other site 351348003856 active site 351348003857 Protein of unknown function (DUF416); Region: DUF416; pfam04222 351348003858 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 351348003859 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 351348003860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348003861 homodimer interface [polypeptide binding]; other site 351348003862 catalytic residue [active] 351348003863 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 351348003864 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 351348003865 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 351348003866 active site 351348003867 substrate binding site [chemical binding]; other site 351348003868 cosubstrate binding site; other site 351348003869 catalytic site [active] 351348003870 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 351348003871 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 351348003872 dimerization interface [polypeptide binding]; other site 351348003873 putative ATP binding site [chemical binding]; other site 351348003874 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 351348003875 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 351348003876 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 351348003877 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 351348003878 Walker A motif; other site 351348003879 ATP binding site [chemical binding]; other site 351348003880 Walker B motif; other site 351348003881 arginine finger; other site 351348003882 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351348003883 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 351348003884 P-loop; other site 351348003885 Magnesium ion binding site [ion binding]; other site 351348003886 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 351348003887 Magnesium ion binding site [ion binding]; other site 351348003888 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 351348003889 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 351348003890 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 351348003891 dimerization interface [polypeptide binding]; other site 351348003892 active site 351348003893 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 351348003894 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 351348003895 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 351348003896 amidase catalytic site [active] 351348003897 substrate binding site [chemical binding]; other site 351348003898 Zn binding residues [ion binding]; other site 351348003899 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 351348003900 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 351348003901 dimerization interface [polypeptide binding]; other site 351348003902 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348003903 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348003904 dimer interface [polypeptide binding]; other site 351348003905 putative CheW interface [polypeptide binding]; other site 351348003906 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 351348003907 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 351348003908 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 351348003909 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 351348003910 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 351348003911 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351348003912 HIGH motif; other site 351348003913 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351348003914 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351348003915 active site 351348003916 KMSKS motif; other site 351348003917 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 351348003918 tRNA binding surface [nucleotide binding]; other site 351348003919 anticodon binding site; other site 351348003920 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 351348003921 multifunctional aminopeptidase A; Provisional; Region: PRK00913 351348003922 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 351348003923 interface (dimer of trimers) [polypeptide binding]; other site 351348003924 Substrate-binding/catalytic site; other site 351348003925 Zn-binding sites [ion binding]; other site 351348003926 Predicted permeases [General function prediction only]; Region: COG0795 351348003927 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 351348003928 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 351348003929 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 351348003930 RDD family; Region: RDD; pfam06271 351348003931 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 351348003932 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 351348003933 motif 1; other site 351348003934 active site 351348003935 motif 2; other site 351348003936 motif 3; other site 351348003937 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 351348003938 DHHA1 domain; Region: DHHA1; pfam02272 351348003939 aspartate kinase; Reviewed; Region: PRK06635 351348003940 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 351348003941 putative nucleotide binding site [chemical binding]; other site 351348003942 putative catalytic residues [active] 351348003943 putative Mg ion binding site [ion binding]; other site 351348003944 putative aspartate binding site [chemical binding]; other site 351348003945 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 351348003946 putative allosteric regulatory site; other site 351348003947 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 351348003948 putative allosteric regulatory residue; other site 351348003949 carbon storage regulator; Provisional; Region: PRK01712 351348003950 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 351348003951 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 351348003952 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 351348003953 ATP binding site [chemical binding]; other site 351348003954 Mg++ binding site [ion binding]; other site 351348003955 motif III; other site 351348003956 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 351348003957 nucleotide binding region [chemical binding]; other site 351348003958 ATP-binding site [chemical binding]; other site 351348003959 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 351348003960 putative RNA binding site [nucleotide binding]; other site 351348003961 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 351348003962 oxaloacetate decarboxylase; Provisional; Region: PRK14040 351348003963 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 351348003964 active site 351348003965 catalytic residues [active] 351348003966 metal binding site [ion binding]; metal-binding site 351348003967 homodimer binding site [polypeptide binding]; other site 351348003968 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 351348003969 carboxyltransferase (CT) interaction site; other site 351348003970 biotinylation site [posttranslational modification]; other site 351348003971 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 351348003972 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 351348003973 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 351348003974 putative active site [active] 351348003975 putative PHP Thumb interface [polypeptide binding]; other site 351348003976 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 351348003977 generic binding surface I; other site 351348003978 generic binding surface II; other site 351348003979 DNA Polymerase Y-family; Region: PolY_like; cd03468 351348003980 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 351348003981 active site 351348003982 DNA binding site [nucleotide binding] 351348003983 Uncharacterized conserved protein [Function unknown]; Region: COG4544 351348003984 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_a; cd00913 351348003985 aromatic arch; other site 351348003986 DCoH dimer interaction site [polypeptide binding]; other site 351348003987 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 351348003988 DCoH tetramer interaction site [polypeptide binding]; other site 351348003989 substrate binding site [chemical binding]; other site 351348003990 integron integrase; Region: integrase_gron; TIGR02249 351348003991 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 351348003992 Int/Topo IB signature motif; other site 351348003993 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 351348003994 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 351348003995 active site 351348003996 DNA binding site [nucleotide binding] 351348003997 Int/Topo IB signature motif; other site 351348003998 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 351348003999 Putative transposase; Region: Y2_Tnp; pfam04986 351348004000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 351348004001 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351348004002 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348004003 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348004004 Transposase domain (DUF772); Region: DUF772; pfam05598 351348004005 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348004006 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 351348004007 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348004008 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348004009 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 351348004010 Walker A motif; other site 351348004011 ATP binding site [chemical binding]; other site 351348004012 Walker B motif; other site 351348004013 arginine finger; other site 351348004014 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348004015 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348004016 DNA binding residues [nucleotide binding] 351348004017 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004018 Integrase core domain; Region: rve; pfam00665 351348004019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004020 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351348004021 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 351348004022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 351348004023 Transposase; Region: DEDD_Tnp_IS110; pfam01548 351348004024 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351348004025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 351348004026 Transposase; Region: DEDD_Tnp_IS110; pfam01548 351348004027 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351348004028 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004029 Integrase core domain; Region: rve; pfam00665 351348004030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004031 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348004032 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348004033 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 351348004034 Walker A motif; other site 351348004035 ATP binding site [chemical binding]; other site 351348004036 Walker B motif; other site 351348004037 arginine finger; other site 351348004038 Transposase; Region: HTH_Tnp_1; pfam01527 351348004039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348004040 putative transposase OrfB; Reviewed; Region: PHA02517 351348004041 HTH-like domain; Region: HTH_21; pfam13276 351348004042 Integrase core domain; Region: rve; pfam00665 351348004043 Integrase core domain; Region: rve_3; cl15866 351348004044 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 351348004045 dimer interface [polypeptide binding]; other site 351348004046 hexamer interface [polypeptide binding]; other site 351348004047 active site 2 [active] 351348004048 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351348004049 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351348004050 Cupin; Region: Cupin_6; pfam12852 351348004051 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348004052 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348004053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348004054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348004055 NADH(P)-binding; Region: NAD_binding_10; pfam13460 351348004056 NAD(P) binding site [chemical binding]; other site 351348004057 active site 351348004058 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348004059 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 351348004060 active site 351348004061 phosphorylation site [posttranslational modification] 351348004062 intermolecular recognition site; other site 351348004063 dimerization interface [polypeptide binding]; other site 351348004064 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 351348004065 DNA binding site [nucleotide binding] 351348004066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348004067 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 351348004068 dimer interface [polypeptide binding]; other site 351348004069 phosphorylation site [posttranslational modification] 351348004070 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 351348004071 ATP binding site [chemical binding]; other site 351348004072 Mg2+ binding site [ion binding]; other site 351348004073 G-X-G motif; other site 351348004074 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 351348004075 methionine sulfoxide reductase B; Provisional; Region: PRK00222 351348004076 SelR domain; Region: SelR; pfam01641 351348004077 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348004078 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348004079 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348004080 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351348004081 FtsX-like permease family; Region: FtsX; pfam02687 351348004082 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348004083 FtsX-like permease family; Region: FtsX; pfam02687 351348004084 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348004085 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348004086 Walker A/P-loop; other site 351348004087 ATP binding site [chemical binding]; other site 351348004088 Q-loop/lid; other site 351348004089 ABC transporter signature motif; other site 351348004090 Walker B; other site 351348004091 D-loop; other site 351348004092 H-loop/switch region; other site 351348004093 putative S-transferase; Provisional; Region: PRK11752 351348004094 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 351348004095 C-terminal domain interface [polypeptide binding]; other site 351348004096 GSH binding site (G-site) [chemical binding]; other site 351348004097 dimer interface [polypeptide binding]; other site 351348004098 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 351348004099 dimer interface [polypeptide binding]; other site 351348004100 N-terminal domain interface [polypeptide binding]; other site 351348004101 active site 351348004102 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 351348004103 Ligand Binding Site [chemical binding]; other site 351348004104 FtsH Extracellular; Region: FtsH_ext; pfam06480 351348004105 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351348004106 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 351348004107 Walker A motif; other site 351348004108 ATP binding site [chemical binding]; other site 351348004109 Walker B motif; other site 351348004110 arginine finger; other site 351348004111 Peptidase family M41; Region: Peptidase_M41; pfam01434 351348004112 Domain of unknown function DUF77; Region: DUF77; cl00307 351348004113 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 351348004114 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 351348004115 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 351348004116 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 351348004117 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 351348004118 putative active site [active] 351348004119 putative substrate binding site [chemical binding]; other site 351348004120 putative cosubstrate binding site; other site 351348004121 catalytic site [active] 351348004122 DNA gyrase subunit A; Validated; Region: PRK05560 351348004123 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 351348004124 CAP-like domain; other site 351348004125 active site 351348004126 primary dimer interface [polypeptide binding]; other site 351348004127 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351348004128 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351348004129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351348004130 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351348004131 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351348004132 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 351348004133 homodimer interface [polypeptide binding]; other site 351348004134 substrate-cofactor binding pocket; other site 351348004135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348004136 catalytic residue [active] 351348004137 Chorismate mutase type II; Region: CM_2; cl00693 351348004138 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 351348004139 Prephenate dehydratase; Region: PDT; pfam00800 351348004140 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 351348004141 putative L-Phe binding site [chemical binding]; other site 351348004142 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 351348004143 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 351348004144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348004145 homodimer interface [polypeptide binding]; other site 351348004146 catalytic residue [active] 351348004147 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 351348004148 prephenate dehydrogenase; Validated; Region: PRK08507 351348004149 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 351348004150 hinge; other site 351348004151 active site 351348004152 cytidylate kinase; Provisional; Region: cmk; PRK00023 351348004153 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 351348004154 CMP-binding site; other site 351348004155 The sites determining sugar specificity; other site 351348004156 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 351348004157 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 351348004158 RNA binding site [nucleotide binding]; other site 351348004159 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 351348004160 RNA binding site [nucleotide binding]; other site 351348004161 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 351348004162 RNA binding site [nucleotide binding]; other site 351348004163 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 351348004164 RNA binding site [nucleotide binding]; other site 351348004165 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 351348004166 RNA binding site [nucleotide binding]; other site 351348004167 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 351348004168 IHF - DNA interface [nucleotide binding]; other site 351348004169 IHF dimer interface [polypeptide binding]; other site 351348004170 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 351348004171 tetratricopeptide repeat protein; Provisional; Region: PRK11788 351348004172 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 351348004173 active site 351348004174 dimer interface [polypeptide binding]; other site 351348004175 aspartate aminotransferase; Provisional; Region: PRK05764 351348004176 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 351348004177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348004178 homodimer interface [polypeptide binding]; other site 351348004179 catalytic residue [active] 351348004180 excinuclease ABC subunit B; Provisional; Region: PRK05298 351348004181 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 351348004182 ATP binding site [chemical binding]; other site 351348004183 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 351348004184 nucleotide binding region [chemical binding]; other site 351348004185 ATP-binding site [chemical binding]; other site 351348004186 Ultra-violet resistance protein B; Region: UvrB; pfam12344 351348004187 UvrB/uvrC motif; Region: UVR; pfam02151 351348004188 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 351348004189 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 351348004190 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351348004191 Peptidase_C39 like family; Region: DUF3335; pfam11814 351348004192 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 351348004193 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 351348004194 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351348004195 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 351348004196 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 351348004197 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 351348004198 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 351348004199 quinone interaction residues [chemical binding]; other site 351348004200 active site 351348004201 catalytic residues [active] 351348004202 FMN binding site [chemical binding]; other site 351348004203 substrate binding site [chemical binding]; other site 351348004204 Ribosome modulation factor; Region: RMF; pfam04957 351348004205 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 351348004206 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 351348004207 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 351348004208 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348004209 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351348004210 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 351348004211 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 351348004212 active site 351348004213 metal binding site [ion binding]; metal-binding site 351348004214 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 351348004215 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 351348004216 active site 351348004217 catalytic triad [active] 351348004218 oxyanion hole [active] 351348004219 switch loop; other site 351348004220 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348004221 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348004222 Walker A/P-loop; other site 351348004223 ATP binding site [chemical binding]; other site 351348004224 Q-loop/lid; other site 351348004225 ABC transporter signature motif; other site 351348004226 Walker B; other site 351348004227 D-loop; other site 351348004228 H-loop/switch region; other site 351348004229 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 351348004230 FtsX-like permease family; Region: FtsX; pfam02687 351348004231 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348004232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348004233 substrate binding pocket [chemical binding]; other site 351348004234 membrane-bound complex binding site; other site 351348004235 hinge residues; other site 351348004236 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351348004237 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 351348004238 active site 351348004239 NAD binding site [chemical binding]; other site 351348004240 metal binding site [ion binding]; metal-binding site 351348004241 Peptidase family M48; Region: Peptidase_M48; pfam01435 351348004242 TPR repeat; Region: TPR_11; pfam13414 351348004243 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 351348004244 TPR motif; other site 351348004245 binding surface 351348004246 Protein of unknown function, DUF599; Region: DUF599; pfam04654 351348004247 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 351348004248 CoenzymeA binding site [chemical binding]; other site 351348004249 subunit interaction site [polypeptide binding]; other site 351348004250 PHB binding site; other site 351348004251 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 351348004252 CoenzymeA binding site [chemical binding]; other site 351348004253 subunit interaction site [polypeptide binding]; other site 351348004254 PHB binding site; other site 351348004255 heat shock protein 90; Provisional; Region: PRK05218 351348004256 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 351348004257 ATP binding site [chemical binding]; other site 351348004258 Mg2+ binding site [ion binding]; other site 351348004259 G-X-G motif; other site 351348004260 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 351348004261 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 351348004262 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 351348004263 dimer interface [polypeptide binding]; other site 351348004264 active site 351348004265 heme binding site [chemical binding]; other site 351348004266 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 351348004267 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 351348004268 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 351348004269 FMN binding site [chemical binding]; other site 351348004270 active site 351348004271 catalytic residues [active] 351348004272 substrate binding site [chemical binding]; other site 351348004273 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 351348004274 active site 351348004275 intersubunit interface [polypeptide binding]; other site 351348004276 catalytic residue [active] 351348004277 Predicted dehydrogenase [General function prediction only]; Region: COG5322 351348004278 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 351348004279 NAD(P) binding pocket [chemical binding]; other site 351348004280 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 351348004281 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348004282 Coenzyme A binding pocket [chemical binding]; other site 351348004283 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 351348004284 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 351348004285 aspartate racemase; Region: asp_race; TIGR00035 351348004286 EamA-like transporter family; Region: EamA; pfam00892 351348004287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348004288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348004289 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 351348004290 putative effector binding pocket; other site 351348004291 dimerization interface [polypeptide binding]; other site 351348004292 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 351348004293 dimer interface [polypeptide binding]; other site 351348004294 FMN binding site [chemical binding]; other site 351348004295 TPR repeat; Region: TPR_11; pfam13414 351348004296 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 351348004297 binding surface 351348004298 TPR motif; other site 351348004299 Uncharacterized conserved protein [Function unknown]; Region: COG2128 351348004300 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351348004301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 351348004302 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 351348004303 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 351348004304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004305 Integrase core domain; Region: rve; pfam00665 351348004306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004307 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348004308 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348004309 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 351348004310 Walker A motif; other site 351348004311 ATP binding site [chemical binding]; other site 351348004312 Walker B motif; other site 351348004313 arginine finger; other site 351348004314 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351348004315 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 351348004316 active site 351348004317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 351348004318 DinB superfamily; Region: DinB_2; pfam12867 351348004319 beta-lactamase TEM; Provisional; Region: PRK15442 351348004320 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 351348004321 active site 1 [active] 351348004322 dimer interface [polypeptide binding]; other site 351348004323 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 351348004324 hexamer interface [polypeptide binding]; other site 351348004325 active site 2 [active] 351348004326 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351348004327 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351348004328 TSCPD domain; Region: TSCPD; pfam12637 351348004329 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 351348004330 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 351348004331 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 351348004332 active site 351348004333 dimer interface [polypeptide binding]; other site 351348004334 effector binding site; other site 351348004335 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 351348004336 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 351348004337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348004338 Walker A/P-loop; other site 351348004339 ATP binding site [chemical binding]; other site 351348004340 Q-loop/lid; other site 351348004341 ABC transporter signature motif; other site 351348004342 Walker B; other site 351348004343 D-loop; other site 351348004344 H-loop/switch region; other site 351348004345 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351348004346 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 351348004347 TM-ABC transporter signature motif; other site 351348004348 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 351348004349 zinc binding site [ion binding]; other site 351348004350 putative ligand binding site [chemical binding]; other site 351348004351 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 351348004352 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 351348004353 acyl-activating enzyme (AAE) consensus motif; other site 351348004354 putative AMP binding site [chemical binding]; other site 351348004355 putative active site [active] 351348004356 putative CoA binding site [chemical binding]; other site 351348004357 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 351348004358 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 351348004359 dimer interface [polypeptide binding]; other site 351348004360 conserved gate region; other site 351348004361 putative PBP binding loops; other site 351348004362 ABC-ATPase subunit interface; other site 351348004363 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 351348004364 dimer interface [polypeptide binding]; other site 351348004365 conserved gate region; other site 351348004366 putative PBP binding loops; other site 351348004367 ABC-ATPase subunit interface; other site 351348004368 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 351348004369 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 351348004370 PilZ domain; Region: PilZ; pfam07238 351348004371 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 351348004372 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348004373 HD domain; Region: HD_5; pfam13487 351348004374 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351348004375 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 351348004376 Walker A/P-loop; other site 351348004377 ATP binding site [chemical binding]; other site 351348004378 Q-loop/lid; other site 351348004379 ABC transporter signature motif; other site 351348004380 Walker B; other site 351348004381 D-loop; other site 351348004382 H-loop/switch region; other site 351348004383 inner membrane transport permease; Provisional; Region: PRK15066 351348004384 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351348004385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 351348004386 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 351348004387 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 351348004388 MASE2 domain; Region: MASE2; pfam05230 351348004389 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 351348004390 cyclase homology domain; Region: CHD; cd07302 351348004391 nucleotidyl binding site; other site 351348004392 metal binding site [ion binding]; metal-binding site 351348004393 dimer interface [polypeptide binding]; other site 351348004394 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 351348004395 putative FMN binding site [chemical binding]; other site 351348004396 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 351348004397 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 351348004398 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 351348004399 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351348004400 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351348004401 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 351348004402 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 351348004403 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 351348004404 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351348004405 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 351348004406 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 351348004407 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351348004408 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 351348004409 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351348004410 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 351348004411 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 351348004412 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351348004413 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351348004414 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 351348004415 Flagellar L-ring protein; Region: FlgH; pfam02107 351348004416 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 351348004417 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 351348004418 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 351348004419 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 351348004420 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 351348004421 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 351348004422 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351348004423 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 351348004424 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351348004425 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 351348004426 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 351348004427 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 351348004428 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 351348004429 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 351348004430 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 351348004431 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 351348004432 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 351348004433 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 351348004434 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 351348004435 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 351348004436 Protein export membrane protein; Region: SecD_SecF; pfam02355 351348004437 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351348004438 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 351348004439 active site 351348004440 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 351348004441 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 351348004442 serine O-acetyltransferase; Region: cysE; TIGR01172 351348004443 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 351348004444 trimer interface [polypeptide binding]; other site 351348004445 active site 351348004446 substrate binding site [chemical binding]; other site 351348004447 CoA binding site [chemical binding]; other site 351348004448 Transcriptional regulator; Region: Rrf2; cl17282 351348004449 Rrf2 family protein; Region: rrf2_super; TIGR00738 351348004450 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 351348004451 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 351348004452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351348004453 catalytic residue [active] 351348004454 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 351348004455 active site 351348004456 multimer interface [polypeptide binding]; other site 351348004457 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 351348004458 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 351348004459 FeS/SAM binding site; other site 351348004460 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 351348004461 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 351348004462 binding surface 351348004463 TPR motif; other site 351348004464 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 351348004465 binding surface 351348004466 TPR motif; other site 351348004467 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 351348004468 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 351348004469 non-specific DNA binding site [nucleotide binding]; other site 351348004470 salt bridge; other site 351348004471 sequence-specific DNA binding site [nucleotide binding]; other site 351348004472 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 351348004473 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 351348004474 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351348004475 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351348004476 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 351348004477 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 351348004478 dimer interface [polypeptide binding]; other site 351348004479 motif 1; other site 351348004480 active site 351348004481 motif 2; other site 351348004482 motif 3; other site 351348004483 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 351348004484 anticodon binding site; other site 351348004485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 351348004486 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 351348004487 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 351348004488 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 351348004489 Trp docking motif [polypeptide binding]; other site 351348004490 active site 351348004491 GTP-binding protein Der; Reviewed; Region: PRK00093 351348004492 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 351348004493 G1 box; other site 351348004494 GTP/Mg2+ binding site [chemical binding]; other site 351348004495 Switch I region; other site 351348004496 G2 box; other site 351348004497 Switch II region; other site 351348004498 G3 box; other site 351348004499 G4 box; other site 351348004500 G5 box; other site 351348004501 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 351348004502 G1 box; other site 351348004503 GTP/Mg2+ binding site [chemical binding]; other site 351348004504 Switch I region; other site 351348004505 G2 box; other site 351348004506 G3 box; other site 351348004507 Switch II region; other site 351348004508 G4 box; other site 351348004509 G5 box; other site 351348004510 phosphate acetyltransferase; Reviewed; Region: PRK05632 351348004511 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 351348004512 DRTGG domain; Region: DRTGG; pfam07085 351348004513 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 351348004514 propionate/acetate kinase; Provisional; Region: PRK12379 351348004515 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351348004516 nucleotide binding site [chemical binding]; other site 351348004517 butyrate kinase; Provisional; Region: PRK03011 351348004518 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 351348004519 dimerization interface [polypeptide binding]; other site 351348004520 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 351348004521 PAS domain; Region: PAS_9; pfam13426 351348004522 putative active site [active] 351348004523 heme pocket [chemical binding]; other site 351348004524 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348004525 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348004526 metal binding site [ion binding]; metal-binding site 351348004527 active site 351348004528 I-site; other site 351348004529 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 351348004530 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 351348004531 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 351348004532 putative NAD(P) binding site [chemical binding]; other site 351348004533 putative active site [active] 351348004534 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 351348004535 putative active site [active] 351348004536 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 351348004537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 351348004538 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348004539 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 351348004540 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 351348004541 MOSC domain; Region: MOSC; pfam03473 351348004542 ABC transporter ATPase component; Reviewed; Region: PRK11147 351348004543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348004544 Walker A/P-loop; other site 351348004545 ATP binding site [chemical binding]; other site 351348004546 Q-loop/lid; other site 351348004547 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348004548 ABC transporter signature motif; other site 351348004549 Walker B; other site 351348004550 ABC transporter; Region: ABC_tran_2; pfam12848 351348004551 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348004552 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 351348004553 Ligand Binding Site [chemical binding]; other site 351348004554 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 351348004555 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 351348004556 substrate binding site [chemical binding]; other site 351348004557 oxyanion hole (OAH) forming residues; other site 351348004558 trimer interface [polypeptide binding]; other site 351348004559 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351348004560 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351348004561 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351348004562 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 351348004563 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 351348004564 dimer interface [polypeptide binding]; other site 351348004565 active site 351348004566 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 351348004567 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 351348004568 active site 351348004569 interdomain interaction site; other site 351348004570 putative metal-binding site [ion binding]; other site 351348004571 nucleotide binding site [chemical binding]; other site 351348004572 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 351348004573 domain I; other site 351348004574 DNA binding groove [nucleotide binding] 351348004575 phosphate binding site [ion binding]; other site 351348004576 domain II; other site 351348004577 domain III; other site 351348004578 nucleotide binding site [chemical binding]; other site 351348004579 catalytic site [active] 351348004580 domain IV; other site 351348004581 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351348004582 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351348004583 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 351348004584 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 351348004585 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351348004586 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351348004587 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 351348004588 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 351348004589 dimer interface [polypeptide binding]; other site 351348004590 active site 351348004591 citrylCoA binding site [chemical binding]; other site 351348004592 NADH binding [chemical binding]; other site 351348004593 cationic pore residues; other site 351348004594 oxalacetate/citrate binding site [chemical binding]; other site 351348004595 coenzyme A binding site [chemical binding]; other site 351348004596 catalytic triad [active] 351348004597 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 351348004598 Iron-sulfur protein interface; other site 351348004599 proximal quinone binding site [chemical binding]; other site 351348004600 SdhD (CybS) interface [polypeptide binding]; other site 351348004601 proximal heme binding site [chemical binding]; other site 351348004602 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 351348004603 SdhC subunit interface [polypeptide binding]; other site 351348004604 proximal heme binding site [chemical binding]; other site 351348004605 cardiolipin binding site; other site 351348004606 Iron-sulfur protein interface; other site 351348004607 proximal quinone binding site [chemical binding]; other site 351348004608 L-aspartate oxidase; Provisional; Region: PRK06175 351348004609 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 351348004610 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351348004611 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 351348004612 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 351348004613 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 351348004614 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 351348004615 TPP-binding site [chemical binding]; other site 351348004616 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 351348004617 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 351348004618 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 351348004619 E3 interaction surface; other site 351348004620 lipoyl attachment site [posttranslational modification]; other site 351348004621 e3 binding domain; Region: E3_binding; pfam02817 351348004622 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351348004623 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 351348004624 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 351348004625 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348004626 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348004627 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351348004628 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351348004629 CoA-ligase; Region: Ligase_CoA; pfam00549 351348004630 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351348004631 CoA binding domain; Region: CoA_binding; pfam02629 351348004632 CoA-ligase; Region: Ligase_CoA; pfam00549 351348004633 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 351348004634 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 351348004635 active site 351348004636 HIGH motif; other site 351348004637 dimer interface [polypeptide binding]; other site 351348004638 KMSKS motif; other site 351348004639 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351348004640 active site 351348004641 KMSKS motif; other site 351348004642 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 351348004643 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 351348004644 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 351348004645 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 351348004646 RNA binding surface [nucleotide binding]; other site 351348004647 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 351348004648 probable active site [active] 351348004649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348004650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348004651 metal binding site [ion binding]; metal-binding site 351348004652 active site 351348004653 I-site; other site 351348004654 Transcriptional regulators [Transcription]; Region: GntR; COG1802 351348004655 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348004656 DNA-binding site [nucleotide binding]; DNA binding site 351348004657 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351348004658 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351348004659 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351348004660 Walker A/P-loop; other site 351348004661 ATP binding site [chemical binding]; other site 351348004662 Q-loop/lid; other site 351348004663 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 351348004664 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351348004665 ABC transporter signature motif; other site 351348004666 Walker B; other site 351348004667 D-loop; other site 351348004668 H-loop/switch region; other site 351348004669 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 351348004670 FtsZ protein binding site [polypeptide binding]; other site 351348004671 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 351348004672 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 351348004673 nucleotide binding pocket [chemical binding]; other site 351348004674 K-X-D-G motif; other site 351348004675 catalytic site [active] 351348004676 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 351348004677 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 351348004678 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 351348004679 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 351348004680 Dimer interface [polypeptide binding]; other site 351348004681 FOG: CBS domain [General function prediction only]; Region: COG0517 351348004682 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 351348004683 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 351348004684 Uncharacterized conserved protein [Function unknown]; Region: COG4121 351348004685 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 351348004686 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 351348004687 substrate binding site [chemical binding]; other site 351348004688 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 351348004689 FlgN protein; Region: FlgN; pfam05130 351348004690 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 351348004691 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 351348004692 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 351348004693 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 351348004694 Response regulator receiver domain; Region: Response_reg; pfam00072 351348004695 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 351348004696 active site 351348004697 phosphorylation site [posttranslational modification] 351348004698 intermolecular recognition site; other site 351348004699 dimerization interface [polypeptide binding]; other site 351348004700 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351348004701 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351348004702 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 351348004703 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 351348004704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348004705 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 351348004706 dimerization interface [polypeptide binding]; other site 351348004707 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348004708 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348004709 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 351348004710 Isochorismatase family; Region: Isochorismatase; pfam00857 351348004711 catalytic triad [active] 351348004712 dimer interface [polypeptide binding]; other site 351348004713 conserved cis-peptide bond; other site 351348004714 Predicted permeases [General function prediction only]; Region: COG0679 351348004715 Acylphosphatase; Region: Acylphosphatase; pfam00708 351348004716 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351348004717 Cytochrome c; Region: Cytochrom_C; pfam00034 351348004718 Cytochrome c553 [Energy production and conversion]; Region: COG2863 351348004719 Cytochrome c; Region: Cytochrom_C; cl11414 351348004720 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 351348004721 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 351348004722 AzlC protein; Region: AzlC; pfam03591 351348004723 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348004724 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348004725 dimer interface [polypeptide binding]; other site 351348004726 putative CheW interface [polypeptide binding]; other site 351348004727 response regulator; Provisional; Region: PRK09483 351348004728 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 351348004729 active site 351348004730 phosphorylation site [posttranslational modification] 351348004731 intermolecular recognition site; other site 351348004732 dimerization interface [polypeptide binding]; other site 351348004733 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 351348004734 dimerization interface [polypeptide binding]; other site 351348004735 DNA binding residues [nucleotide binding] 351348004736 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 351348004737 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 351348004738 GIY-YIG motif/motif A; other site 351348004739 active site 351348004740 catalytic site [active] 351348004741 putative DNA binding site [nucleotide binding]; other site 351348004742 metal binding site [ion binding]; metal-binding site 351348004743 UvrB/uvrC motif; Region: UVR; pfam02151 351348004744 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 351348004745 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 351348004746 Protein of unknown function (DUF330); Region: DUF330; cl01135 351348004747 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 351348004748 mce related protein; Region: MCE; pfam02470 351348004749 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 351348004750 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348004751 Walker A/P-loop; other site 351348004752 ATP binding site [chemical binding]; other site 351348004753 Q-loop/lid; other site 351348004754 ABC transporter signature motif; other site 351348004755 Walker B; other site 351348004756 D-loop; other site 351348004757 H-loop/switch region; other site 351348004758 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 351348004759 Permease; Region: Permease; pfam02405 351348004760 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348004761 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348004762 Walker A/P-loop; other site 351348004763 ATP binding site [chemical binding]; other site 351348004764 Q-loop/lid; other site 351348004765 ABC transporter signature motif; other site 351348004766 Walker B; other site 351348004767 D-loop; other site 351348004768 H-loop/switch region; other site 351348004769 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 351348004770 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 351348004771 dimer interface [polypeptide binding]; other site 351348004772 conserved gate region; other site 351348004773 putative PBP binding loops; other site 351348004774 ABC-ATPase subunit interface; other site 351348004775 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 351348004776 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348004777 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 351348004778 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 351348004779 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 351348004780 active site 351348004781 DNA binding site [nucleotide binding] 351348004782 Int/Topo IB signature motif; other site 351348004783 Plasmid conjugative transfer entry exclusion protein TraS; Region: TraS; pfam10624 351348004784 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 351348004785 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 351348004786 Catalytic site [active] 351348004787 Y-family of DNA polymerases; Region: PolY; cl12025 351348004788 active site 351348004789 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 351348004790 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 351348004791 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 351348004792 active site 351348004793 catalytic residues [active] 351348004794 DNA binding site [nucleotide binding] 351348004795 Int/Topo IB signature motif; other site 351348004796 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 351348004797 Transposase domain (DUF772); Region: DUF772; pfam05598 351348004798 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351348004799 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348004800 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 351348004801 DNA binding site [nucleotide binding] 351348004802 active site 351348004803 Int/Topo IB signature motif; other site 351348004804 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 351348004805 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351348004806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348004807 dimer interface [polypeptide binding]; other site 351348004808 putative CheW interface [polypeptide binding]; other site 351348004809 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 351348004810 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 351348004811 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 351348004812 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348004813 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348004814 Zn2+ binding site [ion binding]; other site 351348004815 Mg2+ binding site [ion binding]; other site 351348004816 Y-family of DNA polymerases; Region: PolY; cl12025 351348004817 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 351348004818 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 351348004819 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351348004820 catalytic Zn binding site [ion binding]; other site 351348004821 structural Zn binding site [ion binding]; other site 351348004822 NAD(P) binding site [chemical binding]; other site 351348004823 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 351348004824 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 351348004825 S-adenosylmethionine binding site [chemical binding]; other site 351348004826 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348004827 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348004828 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 351348004829 dimerization interface [polypeptide binding]; other site 351348004830 putative DNA binding site [nucleotide binding]; other site 351348004831 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348004832 putative Zn2+ binding site [ion binding]; other site 351348004833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004834 Integrase core domain; Region: rve; pfam00665 351348004835 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348004836 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348004837 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348004838 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 351348004839 Walker A motif; other site 351348004840 ATP binding site [chemical binding]; other site 351348004841 Walker B motif; other site 351348004842 arginine finger; other site 351348004843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 351348004844 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 351348004845 putative hexamer interface [polypeptide binding]; other site 351348004846 putative hexagonal pore; other site 351348004847 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 351348004848 G1 box; other site 351348004849 GTP/Mg2+ binding site [chemical binding]; other site 351348004850 G2 box; other site 351348004851 Switch I region; other site 351348004852 G3 box; other site 351348004853 Switch II region; other site 351348004854 G4 box; other site 351348004855 G5 box; other site 351348004856 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 351348004857 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 351348004858 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 351348004859 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 351348004860 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 351348004861 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 351348004862 Hexamer interface [polypeptide binding]; other site 351348004863 Putative hexagonal pore residue; other site 351348004864 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 351348004865 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 351348004866 Hexamer interface [polypeptide binding]; other site 351348004867 Hexagonal pore residue; other site 351348004868 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 351348004869 Hexamer/Pentamer interface [polypeptide binding]; other site 351348004870 central pore; other site 351348004871 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 351348004872 putative catalytic cysteine [active] 351348004873 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 351348004874 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348004875 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 351348004876 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 351348004877 active site 351348004878 NAD binding site [chemical binding]; other site 351348004879 metal binding site [ion binding]; metal-binding site 351348004880 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 351348004881 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 351348004882 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348004883 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 351348004884 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 351348004885 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 351348004886 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 351348004887 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 351348004888 putative hexamer interface [polypeptide binding]; other site 351348004889 putative hexagonal pore; other site 351348004890 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 351348004891 Hexamer interface [polypeptide binding]; other site 351348004892 Hexagonal pore residue; other site 351348004893 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 351348004894 SLBB domain; Region: SLBB; pfam10531 351348004895 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 351348004896 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 351348004897 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 351348004898 putative hexamer interface [polypeptide binding]; other site 351348004899 putative hexagonal pore; other site 351348004900 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 351348004901 putative hexamer interface [polypeptide binding]; other site 351348004902 putative hexagonal pore; other site 351348004903 Quinolinate synthetase A protein; Region: NadA; cl00420 351348004904 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 351348004905 active site 351348004906 catalytic site [active] 351348004907 substrate binding site [chemical binding]; other site 351348004908 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 351348004909 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 351348004910 AAA domain; Region: AAA_22; pfam13401 351348004911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348004912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348004913 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348004914 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348004915 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348004916 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348004917 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351348004918 FtsX-like permease family; Region: FtsX; pfam02687 351348004919 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348004920 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348004921 Walker A/P-loop; other site 351348004922 ATP binding site [chemical binding]; other site 351348004923 Q-loop/lid; other site 351348004924 ABC transporter signature motif; other site 351348004925 Walker B; other site 351348004926 D-loop; other site 351348004927 H-loop/switch region; other site 351348004928 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 351348004929 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 351348004930 multiple promoter invertase; Provisional; Region: mpi; PRK13413 351348004931 catalytic residues [active] 351348004932 catalytic nucleophile [active] 351348004933 Presynaptic Site I dimer interface [polypeptide binding]; other site 351348004934 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 351348004935 Synaptic Flat tetramer interface [polypeptide binding]; other site 351348004936 Synaptic Site I dimer interface [polypeptide binding]; other site 351348004937 DNA binding site [nucleotide binding] 351348004938 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 351348004939 DNA-binding interface [nucleotide binding]; DNA binding site 351348004940 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 351348004941 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 351348004942 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 351348004943 active site 351348004944 DNA binding site [nucleotide binding] 351348004945 Int/Topo IB signature motif; other site 351348004946 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 351348004947 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 351348004948 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 351348004949 ATP binding site [chemical binding]; other site 351348004950 substrate interface [chemical binding]; other site 351348004951 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 351348004952 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 351348004953 TIR domain; Region: TIR_2; pfam13676 351348004954 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 351348004955 PEP-CTERM protein-sorting domain; Region: PEP_exosort; TIGR02595 351348004956 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 351348004957 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 351348004958 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 351348004959 Cytochrome c; Region: Cytochrom_C; pfam00034 351348004960 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351348004961 Predicted metal-binding protein [General function prediction only]; Region: COG3019 351348004962 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 351348004963 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 351348004964 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348004965 Walker A/P-loop; other site 351348004966 ATP binding site [chemical binding]; other site 351348004967 Q-loop/lid; other site 351348004968 ABC transporter signature motif; other site 351348004969 Walker B; other site 351348004970 D-loop; other site 351348004971 H-loop/switch region; other site 351348004972 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 351348004973 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 351348004974 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348004975 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 351348004976 dimer interface [polypeptide binding]; other site 351348004977 conserved gate region; other site 351348004978 putative PBP binding loops; other site 351348004979 ABC-ATPase subunit interface; other site 351348004980 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 351348004981 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 351348004982 homodimer interface [polypeptide binding]; other site 351348004983 ligand binding site [chemical binding]; other site 351348004984 NAD binding site [chemical binding]; other site 351348004985 catalytic site [active] 351348004986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348004987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348004988 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 351348004989 dimerization interface [polypeptide binding]; other site 351348004990 Helix-turn-helix domain; Region: HTH_18; pfam12833 351348004991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348004992 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348004993 HAMP domain; Region: HAMP; pfam00672 351348004994 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 351348004995 dimer interface [polypeptide binding]; other site 351348004996 phosphorylation site [posttranslational modification] 351348004997 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 351348004998 ATP binding site [chemical binding]; other site 351348004999 Mg2+ binding site [ion binding]; other site 351348005000 G-X-G motif; other site 351348005001 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348005002 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 351348005003 active site 351348005004 phosphorylation site [posttranslational modification] 351348005005 intermolecular recognition site; other site 351348005006 dimerization interface [polypeptide binding]; other site 351348005007 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 351348005008 DNA binding site [nucleotide binding] 351348005009 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 351348005010 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 351348005011 FAD binding pocket [chemical binding]; other site 351348005012 FAD binding motif [chemical binding]; other site 351348005013 phosphate binding motif [ion binding]; other site 351348005014 beta-alpha-beta structure motif; other site 351348005015 NAD binding pocket [chemical binding]; other site 351348005016 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 351348005017 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 351348005018 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 351348005019 Flavodoxin; Region: Flavodoxin_1; pfam00258 351348005020 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 351348005021 FAD binding pocket [chemical binding]; other site 351348005022 FAD binding motif [chemical binding]; other site 351348005023 catalytic residues [active] 351348005024 NAD binding pocket [chemical binding]; other site 351348005025 phosphate binding motif [ion binding]; other site 351348005026 beta-alpha-beta structure motif; other site 351348005027 CCC1-related family of proteins; Region: CCC1_like; cl00278 351348005028 Heavy-metal-associated domain; Region: HMA; pfam00403 351348005029 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348005030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005031 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 351348005032 Integrase core domain; Region: rve; pfam00665 351348005033 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 351348005034 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348005035 Walker A motif; other site 351348005036 ATP binding site [chemical binding]; other site 351348005037 Walker B motif; other site 351348005038 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348005039 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348005040 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 351348005041 Walker A motif; other site 351348005042 ATP binding site [chemical binding]; other site 351348005043 Walker B motif; other site 351348005044 arginine finger; other site 351348005045 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348005046 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348005047 DNA binding residues [nucleotide binding] 351348005048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005049 Integrase core domain; Region: rve; pfam00665 351348005050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005051 Competence protein CoiA-like family; Region: CoiA; cl11541 351348005052 PcfJ-like protein; Region: PcfJ; pfam14284 351348005053 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 351348005054 Predicted transcriptional regulator [Transcription]; Region: COG2378 351348005055 HTH domain; Region: HTH_11; cl17392 351348005056 WYL domain; Region: WYL; pfam13280 351348005057 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 351348005058 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 351348005059 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 351348005060 active site 351348005061 metal binding site [ion binding]; metal-binding site 351348005062 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 351348005063 ATP binding site [chemical binding]; other site 351348005064 putative Mg++ binding site [ion binding]; other site 351348005065 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 351348005066 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 351348005067 nucleotide binding region [chemical binding]; other site 351348005068 ATP-binding site [chemical binding]; other site 351348005069 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 351348005070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 351348005071 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 351348005072 ATP binding site [chemical binding]; other site 351348005073 putative Mg++ binding site [ion binding]; other site 351348005074 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 351348005075 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 351348005076 nucleotide binding region [chemical binding]; other site 351348005077 ATP-binding site [chemical binding]; other site 351348005078 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 351348005079 Uncharacterized conserved protein [Function unknown]; Region: COG1479 351348005080 Protein of unknown function DUF262; Region: DUF262; pfam03235 351348005081 Protein of unknown function DUF262; Region: DUF262; pfam03235 351348005082 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 351348005083 AAA domain; Region: AAA_21; pfam13304 351348005084 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 351348005085 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 351348005086 ATP binding site [chemical binding]; other site 351348005087 putative Mg++ binding site [ion binding]; other site 351348005088 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 351348005089 ATP-binding site [chemical binding]; other site 351348005090 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 351348005091 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 351348005092 Family description; Region: UvrD_C_2; pfam13538 351348005093 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 351348005094 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 351348005095 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 351348005096 DNA helicase IV; Provisional; Region: helD; PRK11054 351348005097 Integrase; Region: Integrase_1; pfam12835 351348005098 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348005099 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 351348005100 Walker A motif; other site 351348005101 ATP binding site [chemical binding]; other site 351348005102 Walker B motif; other site 351348005103 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348005104 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348005105 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 351348005106 Walker A motif; other site 351348005107 ATP binding site [chemical binding]; other site 351348005108 Walker B motif; other site 351348005109 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; cl17257 351348005110 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005111 Integrase core domain; Region: rve; pfam00665 351348005112 transposase; Validated; Region: PRK08181 351348005113 Integrase core domain; Region: rve; pfam00665 351348005114 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 351348005115 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 351348005116 putative active site [active] 351348005117 putative metal binding site [ion binding]; other site 351348005118 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 351348005119 PAS domain S-box; Region: sensory_box; TIGR00229 351348005120 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 351348005121 putative active site [active] 351348005122 heme pocket [chemical binding]; other site 351348005123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348005124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348005125 metal binding site [ion binding]; metal-binding site 351348005126 active site 351348005127 I-site; other site 351348005128 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 351348005129 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 351348005130 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 351348005131 S-adenosylmethionine binding site [chemical binding]; other site 351348005132 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 351348005133 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 351348005134 DNA-binding site [nucleotide binding]; DNA binding site 351348005135 RNA-binding motif; other site 351348005136 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 351348005137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348005138 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 351348005139 dimerization interface [polypeptide binding]; other site 351348005140 Lysine efflux permease [General function prediction only]; Region: COG1279 351348005141 macrolide transporter subunit MacA; Provisional; Region: PRK11578 351348005142 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348005143 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348005144 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 351348005145 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348005146 Walker A/P-loop; other site 351348005147 ATP binding site [chemical binding]; other site 351348005148 Q-loop/lid; other site 351348005149 ABC transporter signature motif; other site 351348005150 Walker B; other site 351348005151 D-loop; other site 351348005152 H-loop/switch region; other site 351348005153 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348005154 FtsX-like permease family; Region: FtsX; pfam02687 351348005155 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 351348005156 RES domain; Region: RES; smart00953 351348005157 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 351348005158 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 351348005159 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 351348005160 putative N- and C-terminal domain interface [polypeptide binding]; other site 351348005161 putative active site [active] 351348005162 MgATP binding site [chemical binding]; other site 351348005163 catalytic site [active] 351348005164 metal binding site [ion binding]; metal-binding site 351348005165 putative carbohydrate binding site [chemical binding]; other site 351348005166 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 351348005167 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 351348005168 FAD binding domain; Region: FAD_binding_4; pfam01565 351348005169 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 351348005170 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 351348005171 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348005172 type II secretion system protein E; Region: type_II_gspE; TIGR02533 351348005173 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 351348005174 Walker A motif; other site 351348005175 ATP binding site [chemical binding]; other site 351348005176 Walker B motif; other site 351348005177 type II secretion system protein F; Region: GspF; TIGR02120 351348005178 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348005179 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348005180 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 351348005181 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351348005182 Type II transport protein GspH; Region: GspH; pfam12019 351348005183 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 351348005184 type II secretion system protein I; Region: gspI; TIGR01707 351348005185 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 351348005186 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351348005187 type II secretion system protein J; Region: gspJ; TIGR01711 351348005188 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 351348005189 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 351348005190 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 351348005191 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 351348005192 GspL periplasmic domain; Region: GspL_C; cl14909 351348005193 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 351348005194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348005195 Coenzyme A binding pocket [chemical binding]; other site 351348005196 glutathione reductase; Validated; Region: PRK06116 351348005197 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348005198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348005199 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348005200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348005201 HAMP domain; Region: HAMP; pfam00672 351348005202 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 351348005203 dimer interface [polypeptide binding]; other site 351348005204 phosphorylation site [posttranslational modification] 351348005205 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 351348005206 ATP binding site [chemical binding]; other site 351348005207 Mg2+ binding site [ion binding]; other site 351348005208 G-X-G motif; other site 351348005209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348005210 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 351348005211 active site 351348005212 phosphorylation site [posttranslational modification] 351348005213 intermolecular recognition site; other site 351348005214 dimerization interface [polypeptide binding]; other site 351348005215 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 351348005216 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 351348005217 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 351348005218 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 351348005219 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 351348005220 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 351348005221 Transcriptional regulators [Transcription]; Region: FadR; COG2186 351348005222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348005223 DNA-binding site [nucleotide binding]; DNA binding site 351348005224 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351348005225 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 351348005226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 351348005227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348005228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348005229 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 351348005230 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 351348005231 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351348005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 351348005233 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 351348005234 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 351348005235 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 351348005236 Walker A/P-loop; other site 351348005237 ATP binding site [chemical binding]; other site 351348005238 Q-loop/lid; other site 351348005239 ABC transporter signature motif; other site 351348005240 Walker B; other site 351348005241 D-loop; other site 351348005242 H-loop/switch region; other site 351348005243 TOBE-like domain; Region: TOBE_3; pfam12857 351348005244 sulfate transport protein; Provisional; Region: cysT; CHL00187 351348005245 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 351348005246 dimer interface [polypeptide binding]; other site 351348005247 conserved gate region; other site 351348005248 putative PBP binding loops; other site 351348005249 ABC-ATPase subunit interface; other site 351348005250 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 351348005251 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 351348005252 dimer interface [polypeptide binding]; other site 351348005253 conserved gate region; other site 351348005254 putative PBP binding loops; other site 351348005255 ABC-ATPase subunit interface; other site 351348005256 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348005257 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 351348005258 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 351348005259 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 351348005260 dimer interface [polypeptide binding]; other site 351348005261 active site 351348005262 CoA binding pocket [chemical binding]; other site 351348005263 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 351348005264 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 351348005265 putative NAD(P) binding site [chemical binding]; other site 351348005266 putative substrate binding site [chemical binding]; other site 351348005267 catalytic Zn binding site [ion binding]; other site 351348005268 structural Zn binding site [ion binding]; other site 351348005269 dimer interface [polypeptide binding]; other site 351348005270 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348005271 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 351348005272 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 351348005273 XdhC Rossmann domain; Region: XdhC_C; pfam13478 351348005274 Protein kinase domain; Region: Pkinase; pfam00069 351348005275 Catalytic domain of Protein Kinases; Region: PKc; cd00180 351348005276 active site 351348005277 ATP binding site [chemical binding]; other site 351348005278 substrate binding site [chemical binding]; other site 351348005279 activation loop (A-loop); other site 351348005280 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 351348005281 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 351348005282 E3 interaction surface; other site 351348005283 lipoyl attachment site [posttranslational modification]; other site 351348005284 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 351348005285 E3 interaction surface; other site 351348005286 lipoyl attachment site [posttranslational modification]; other site 351348005287 e3 binding domain; Region: E3_binding; pfam02817 351348005288 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351348005289 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 351348005290 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 351348005291 alpha subunit interface [polypeptide binding]; other site 351348005292 TPP binding site [chemical binding]; other site 351348005293 heterodimer interface [polypeptide binding]; other site 351348005294 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351348005295 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 351348005296 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 351348005297 tetramer interface [polypeptide binding]; other site 351348005298 TPP-binding site [chemical binding]; other site 351348005299 heterodimer interface [polypeptide binding]; other site 351348005300 phosphorylation loop region [posttranslational modification] 351348005301 malate:quinone oxidoreductase; Validated; Region: PRK05257 351348005302 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 351348005303 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 351348005304 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 351348005305 trimer interface [polypeptide binding]; other site 351348005306 active site 351348005307 substrate binding site [chemical binding]; other site 351348005308 CoA binding site [chemical binding]; other site 351348005309 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351348005310 putative mercuric reductase; Provisional; Region: PRK14694 351348005311 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351348005312 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 351348005313 metal-binding site [ion binding] 351348005314 putative mercuric transport protein; Provisional; Region: PRK13751 351348005315 putative transcriptional regulator MerR; Provisional; Region: PRK13752 351348005316 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 351348005317 DNA binding residues [nucleotide binding] 351348005318 dimer interface [polypeptide binding]; other site 351348005319 mercury binding site [ion binding]; other site 351348005320 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348005321 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 351348005322 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348005323 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348005324 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 351348005325 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 351348005326 Cu(I) binding site [ion binding]; other site 351348005327 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 351348005328 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348005329 catalytic residues [active] 351348005330 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 351348005331 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 351348005332 DNA binding residues [nucleotide binding] 351348005333 dimer interface [polypeptide binding]; other site 351348005334 putative metal binding site [ion binding]; other site 351348005335 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 351348005336 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 351348005337 putative active site [active] 351348005338 catalytic triad [active] 351348005339 putative dimer interface [polypeptide binding]; other site 351348005340 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 351348005341 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 351348005342 Sodium Bile acid symporter family; Region: SBF; cl17470 351348005343 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 351348005344 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 351348005345 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 351348005346 DNA binding residues [nucleotide binding] 351348005347 dimer interface [polypeptide binding]; other site 351348005348 putative metal binding site [ion binding]; other site 351348005349 Heavy-metal-associated domain; Region: HMA; pfam00403 351348005350 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348005351 lipoprotein signal peptidase; Provisional; Region: PRK14776 351348005352 lipoprotein signal peptidase; Provisional; Region: PRK14787 351348005353 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351348005354 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 351348005355 dimer interface [polypeptide binding]; other site 351348005356 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351348005357 catalytic triad [active] 351348005358 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 351348005359 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 351348005360 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348005361 catalytic residues [active] 351348005362 central insert; other site 351348005363 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 351348005364 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 351348005365 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 351348005366 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 351348005367 binding surface 351348005368 TPR motif; other site 351348005369 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 351348005370 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 351348005371 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351348005372 DNA binding residues [nucleotide binding] 351348005373 dimer interface [polypeptide binding]; other site 351348005374 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348005375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348005376 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348005377 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348005378 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348005379 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 351348005380 dimerization interface [polypeptide binding]; other site 351348005381 putative effector binding pocket; other site 351348005382 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 351348005383 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 351348005384 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351348005385 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 351348005386 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 351348005387 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 351348005388 putative homodimer interface [polypeptide binding]; other site 351348005389 putative active site pocket [active] 351348005390 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 351348005391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348005392 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 351348005393 NAD(P) binding site [chemical binding]; other site 351348005394 active site 351348005395 PilZ domain; Region: PilZ; pfam07238 351348005396 4-alpha-glucanotransferase; Provisional; Region: PRK14508 351348005397 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 351348005398 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 351348005399 putative active site [active] 351348005400 catalytic site [active] 351348005401 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 351348005402 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 351348005403 ligand binding site; other site 351348005404 oligomer interface; other site 351348005405 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 351348005406 dimer interface [polypeptide binding]; other site 351348005407 N-terminal domain interface [polypeptide binding]; other site 351348005408 sulfate 1 binding site; other site 351348005409 glycogen branching enzyme; Provisional; Region: PRK12313 351348005410 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 351348005411 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 351348005412 active site 351348005413 catalytic site [active] 351348005414 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 351348005415 glycogen synthase; Provisional; Region: glgA; PRK00654 351348005416 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 351348005417 ADP-binding pocket [chemical binding]; other site 351348005418 homodimer interface [polypeptide binding]; other site 351348005419 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 351348005420 putative homodimer interface [polypeptide binding]; other site 351348005421 putative active site pocket [active] 351348005422 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 351348005423 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348005424 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 351348005425 putative acyl-acceptor binding pocket; other site 351348005426 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 351348005427 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 351348005428 ATP binding site [chemical binding]; other site 351348005429 putative Mg++ binding site [ion binding]; other site 351348005430 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 351348005431 nucleotide binding region [chemical binding]; other site 351348005432 ATP-binding site [chemical binding]; other site 351348005433 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 351348005434 HRDC domain; Region: HRDC; pfam00570 351348005435 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 351348005436 CoenzymeA binding site [chemical binding]; other site 351348005437 subunit interaction site [polypeptide binding]; other site 351348005438 PHB binding site; other site 351348005439 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348005440 Predicted amidohydrolase [General function prediction only]; Region: COG0388 351348005441 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 351348005442 putative active site [active] 351348005443 catalytic triad [active] 351348005444 putative dimer interface [polypeptide binding]; other site 351348005445 Uncharacterized conserved protein [Function unknown]; Region: COG3743 351348005446 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 351348005447 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 351348005448 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348005449 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 351348005450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348005451 Walker A/P-loop; other site 351348005452 ATP binding site [chemical binding]; other site 351348005453 Q-loop/lid; other site 351348005454 ABC transporter signature motif; other site 351348005455 Walker B; other site 351348005456 D-loop; other site 351348005457 H-loop/switch region; other site 351348005458 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348005459 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348005460 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351348005461 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351348005462 Walker A/P-loop; other site 351348005463 ATP binding site [chemical binding]; other site 351348005464 Q-loop/lid; other site 351348005465 ABC transporter signature motif; other site 351348005466 Walker B; other site 351348005467 D-loop; other site 351348005468 H-loop/switch region; other site 351348005469 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351348005470 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351348005471 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 351348005472 enoyl-CoA hydratase; Validated; Region: PRK08139 351348005473 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 351348005474 substrate binding site [chemical binding]; other site 351348005475 oxyanion hole (OAH) forming residues; other site 351348005476 trimer interface [polypeptide binding]; other site 351348005477 Transposase domain (DUF772); Region: DUF772; pfam05598 351348005478 Uncharacterized conserved protein [Function unknown]; Region: COG4938 351348005479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348005480 Walker B; other site 351348005481 D-loop; other site 351348005482 H-loop/switch region; other site 351348005483 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 351348005484 Protein of unknown function DUF262; Region: DUF262; pfam03235 351348005485 Uncharacterized conserved protein [Function unknown]; Region: COG1479 351348005486 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 351348005487 S-adenosylmethionine binding site [chemical binding]; other site 351348005488 NNMT/PNMT/TEMT family; Region: NNMT_PNMT_TEMT; pfam01234 351348005489 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 351348005490 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 351348005491 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 351348005492 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 351348005493 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351348005494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348005495 Walker A/P-loop; other site 351348005496 ATP binding site [chemical binding]; other site 351348005497 Q-loop/lid; other site 351348005498 ABC transporter signature motif; other site 351348005499 Walker B; other site 351348005500 D-loop; other site 351348005501 H-loop/switch region; other site 351348005502 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 351348005503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348005504 Walker A/P-loop; other site 351348005505 ATP binding site [chemical binding]; other site 351348005506 Q-loop/lid; other site 351348005507 ABC transporter signature motif; other site 351348005508 Walker B; other site 351348005509 D-loop; other site 351348005510 H-loop/switch region; other site 351348005511 Uncharacterized conserved protein [Function unknown]; Region: COG3268 351348005512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348005513 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 351348005514 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 351348005515 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351348005516 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 351348005517 Ligand binding site [chemical binding]; other site 351348005518 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351348005519 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 351348005520 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348005521 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 351348005522 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 351348005523 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348005524 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 351348005525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 351348005526 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 351348005527 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351348005528 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 351348005529 FeS/SAM binding site; other site 351348005530 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 351348005531 catalytic core [active] 351348005532 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 351348005533 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 351348005534 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 351348005535 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 351348005536 anti sigma factor interaction site; other site 351348005537 regulatory phosphorylation site [posttranslational modification]; other site 351348005538 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348005539 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 351348005540 active site 351348005541 phosphorylation site [posttranslational modification] 351348005542 intermolecular recognition site; other site 351348005543 dimerization interface [polypeptide binding]; other site 351348005544 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351348005545 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 351348005546 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 351348005547 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348005548 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 351348005549 Di-iron ligands [ion binding]; other site 351348005550 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 351348005551 SnoaL-like domain; Region: SnoaL_2; pfam12680 351348005552 short chain dehydrogenase; Provisional; Region: PRK06101 351348005553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348005554 NAD(P) binding site [chemical binding]; other site 351348005555 active site 351348005556 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 351348005557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348005558 hydroxyglutarate oxidase; Provisional; Region: PRK11728 351348005559 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 351348005560 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 351348005561 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 351348005562 S-adenosylmethionine binding site [chemical binding]; other site 351348005563 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 351348005564 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 351348005565 putative catalytic site [active] 351348005566 putative phosphate binding site [ion binding]; other site 351348005567 active site 351348005568 metal binding site A [ion binding]; metal-binding site 351348005569 DNA binding site [nucleotide binding] 351348005570 putative AP binding site [nucleotide binding]; other site 351348005571 putative metal binding site B [ion binding]; other site 351348005572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348005573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348005574 Bacterial transcriptional repressor; Region: TetR; pfam13972 351348005575 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 351348005576 Predicted transporter component [General function prediction only]; Region: COG2391 351348005577 Predicted transporter component [General function prediction only]; Region: COG2391 351348005578 Sulphur transport; Region: Sulf_transp; pfam04143 351348005579 Putative phosphatase (DUF442); Region: DUF442; cl17385 351348005580 ferrochelatase; Reviewed; Region: hemH; PRK00035 351348005581 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 351348005582 C-terminal domain interface [polypeptide binding]; other site 351348005583 active site 351348005584 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 351348005585 active site 351348005586 N-terminal domain interface [polypeptide binding]; other site 351348005587 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 351348005588 putative active site [active] 351348005589 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 351348005590 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 351348005591 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 351348005592 integrase; Provisional; Region: PRK09692 351348005593 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348005594 active site 351348005595 Int/Topo IB signature motif; other site 351348005596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 351348005597 Domain of unknown function (DUF927); Region: DUF927; pfam06048 351348005598 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348005599 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 351348005600 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 351348005601 DNA binding site [nucleotide binding] 351348005602 active site 351348005603 Int/Topo IB signature motif; other site 351348005604 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 351348005605 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351348005606 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; cl17220 351348005607 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 351348005608 YccA-like proteins; Region: YccA_like; cd10433 351348005609 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 351348005610 DsrE/DsrF-like family; Region: DrsE; cl00672 351348005611 DsrE/DsrF-like family; Region: DrsE; cl00672 351348005612 DsrH like protein; Region: DsrH; cl17347 351348005613 DsrC like protein; Region: DsrC; pfam04358 351348005614 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 351348005615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 351348005616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 351348005617 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 351348005618 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 351348005619 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 351348005620 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 351348005621 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 351348005622 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 351348005623 substrate binding pocket [chemical binding]; other site 351348005624 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 351348005625 B12 binding site [chemical binding]; other site 351348005626 cobalt ligand [ion binding]; other site 351348005627 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 351348005628 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 351348005629 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 351348005630 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351348005631 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351348005632 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 351348005633 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 351348005634 putative inner membrane peptidase; Provisional; Region: PRK11778 351348005635 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 351348005636 tandem repeat interface [polypeptide binding]; other site 351348005637 oligomer interface [polypeptide binding]; other site 351348005638 active site residues [active] 351348005639 SCP-2 sterol transfer family; Region: SCP2; pfam02036 351348005640 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 351348005641 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 351348005642 active site 351348005643 catalytic site [active] 351348005644 substrate binding site [chemical binding]; other site 351348005645 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 351348005646 RNA/DNA hybrid binding site [nucleotide binding]; other site 351348005647 active site 351348005648 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 351348005649 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 351348005650 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 351348005651 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 351348005652 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348005653 catalytic residue [active] 351348005654 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348005655 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348005656 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 351348005657 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348005658 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 351348005659 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 351348005660 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 351348005661 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 351348005662 dimer interface [polypeptide binding]; other site 351348005663 conserved gate region; other site 351348005664 putative PBP binding loops; other site 351348005665 ABC-ATPase subunit interface; other site 351348005666 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 351348005667 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 351348005668 dimer interface [polypeptide binding]; other site 351348005669 conserved gate region; other site 351348005670 ABC-ATPase subunit interface; other site 351348005671 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 351348005672 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348005673 Walker A/P-loop; other site 351348005674 ATP binding site [chemical binding]; other site 351348005675 Q-loop/lid; other site 351348005676 ABC transporter signature motif; other site 351348005677 Walker B; other site 351348005678 D-loop; other site 351348005679 H-loop/switch region; other site 351348005680 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351348005681 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348005682 Walker A/P-loop; other site 351348005683 ATP binding site [chemical binding]; other site 351348005684 Q-loop/lid; other site 351348005685 ABC transporter signature motif; other site 351348005686 Walker B; other site 351348005687 D-loop; other site 351348005688 H-loop/switch region; other site 351348005689 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351348005690 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 351348005691 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 351348005692 NAD binding site [chemical binding]; other site 351348005693 homotetramer interface [polypeptide binding]; other site 351348005694 homodimer interface [polypeptide binding]; other site 351348005695 substrate binding site [chemical binding]; other site 351348005696 active site 351348005697 PilZ domain; Region: PilZ; pfam07238 351348005698 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 351348005699 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 351348005700 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 351348005701 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 351348005702 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 351348005703 active site 351348005704 SAM binding site [chemical binding]; other site 351348005705 homodimer interface [polypeptide binding]; other site 351348005706 seryl-tRNA synthetase; Provisional; Region: PRK05431 351348005707 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 351348005708 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 351348005709 dimer interface [polypeptide binding]; other site 351348005710 active site 351348005711 motif 1; other site 351348005712 motif 2; other site 351348005713 motif 3; other site 351348005714 recombination factor protein RarA; Reviewed; Region: PRK13342 351348005715 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 351348005716 Walker A motif; other site 351348005717 ATP binding site [chemical binding]; other site 351348005718 Walker B motif; other site 351348005719 arginine finger; other site 351348005720 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 351348005721 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 351348005722 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 351348005723 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 351348005724 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 351348005725 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 351348005726 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 351348005727 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 351348005728 homodimer interface [polypeptide binding]; other site 351348005729 substrate-cofactor binding pocket; other site 351348005730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348005731 catalytic residue [active] 351348005732 amidophosphoribosyltransferase; Provisional; Region: PRK09246 351348005733 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 351348005734 active site 351348005735 tetramer interface [polypeptide binding]; other site 351348005736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348005737 active site 351348005738 Colicin V production protein; Region: Colicin_V; cl00567 351348005739 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 351348005740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 351348005741 Sporulation related domain; Region: SPOR; pfam05036 351348005742 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 351348005743 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348005744 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348005745 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 351348005746 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 351348005747 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 351348005748 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 351348005749 substrate binding site [chemical binding]; other site 351348005750 active site 351348005751 catalytic residues [active] 351348005752 heterodimer interface [polypeptide binding]; other site 351348005753 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 351348005754 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 351348005755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348005756 catalytic residue [active] 351348005757 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 351348005758 active site 351348005759 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 351348005760 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 351348005761 dimerization interface 3.5A [polypeptide binding]; other site 351348005762 active site 351348005763 FimV N-terminal domain; Region: FimV_core; TIGR03505 351348005764 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 351348005765 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 351348005766 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351348005767 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 351348005768 tartrate dehydrogenase; Region: TTC; TIGR02089 351348005769 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 351348005770 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 351348005771 substrate binding site [chemical binding]; other site 351348005772 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 351348005773 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 351348005774 substrate binding site [chemical binding]; other site 351348005775 ligand binding site [chemical binding]; other site 351348005776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348005777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348005778 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 351348005779 dimerization interface [polypeptide binding]; other site 351348005780 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 351348005781 MFS_1 like family; Region: MFS_1_like; pfam12832 351348005782 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 351348005783 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 351348005784 Tetramer interface [polypeptide binding]; other site 351348005785 active site 351348005786 FMN-binding site [chemical binding]; other site 351348005787 HemK family putative methylases; Region: hemK_fam; TIGR00536 351348005788 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 351348005789 S-adenosylmethionine binding site [chemical binding]; other site 351348005790 hypothetical protein; Provisional; Region: PRK10279 351348005791 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 351348005792 active site 351348005793 nucleophile elbow; other site 351348005794 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351348005795 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348005796 PilZ domain; Region: PilZ; cl01260 351348005797 DNA polymerase III subunit delta'; Validated; Region: PRK05707 351348005798 DNA polymerase III subunit delta'; Validated; Region: PRK08485 351348005799 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 351348005800 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351348005801 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351348005802 Protein of unknown function DUF58; Region: DUF58; pfam01882 351348005803 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 351348005804 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 351348005805 chorismate binding enzyme; Region: Chorismate_bind; cl10555 351348005806 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 351348005807 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 351348005808 motif II; other site 351348005809 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 351348005810 Active Sites [active] 351348005811 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 351348005812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348005813 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 351348005814 substrate binding site [chemical binding]; other site 351348005815 dimerization interface [polypeptide binding]; other site 351348005816 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 351348005817 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 351348005818 DNA binding residues [nucleotide binding] 351348005819 dimerization interface [polypeptide binding]; other site 351348005820 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 351348005821 DEAD/DEAH box helicase; Region: DEAD; pfam00270 351348005822 DEAD_2; Region: DEAD_2; pfam06733 351348005823 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 351348005824 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 351348005825 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 351348005826 Walker A motif; other site 351348005827 ATP binding site [chemical binding]; other site 351348005828 Walker B motif; other site 351348005829 arginine finger; other site 351348005830 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348005831 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 351348005832 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 351348005833 active site 351348005834 nucleophile elbow; other site 351348005835 VacJ like lipoprotein; Region: VacJ; cl01073 351348005836 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 351348005837 active site 351348005838 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 351348005839 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 351348005840 dimer interface [polypeptide binding]; other site 351348005841 active site 351348005842 CoA binding pocket [chemical binding]; other site 351348005843 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 351348005844 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 351348005845 ATP binding site [chemical binding]; other site 351348005846 putative Mg++ binding site [ion binding]; other site 351348005847 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 351348005848 nucleotide binding region [chemical binding]; other site 351348005849 ATP-binding site [chemical binding]; other site 351348005850 Helicase associated domain (HA2); Region: HA2; pfam04408 351348005851 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 351348005852 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 351348005853 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 351348005854 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 351348005855 acyl-activating enzyme (AAE) consensus motif; other site 351348005856 putative AMP binding site [chemical binding]; other site 351348005857 putative active site [active] 351348005858 putative CoA binding site [chemical binding]; other site 351348005859 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 351348005860 dimer interaction site [polypeptide binding]; other site 351348005861 substrate-binding tunnel; other site 351348005862 active site 351348005863 catalytic site [active] 351348005864 substrate binding site [chemical binding]; other site 351348005865 Gram-negative bacterial tonB protein; Region: TonB; cl10048 351348005866 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351348005867 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348005868 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348005869 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351348005870 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 351348005871 binding surface 351348005872 TPR motif; other site 351348005873 TPR repeat; Region: TPR_11; pfam13414 351348005874 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 351348005875 TPR motif; other site 351348005876 binding surface 351348005877 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 351348005878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 351348005879 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 351348005880 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348005881 Walker A motif; other site 351348005882 ATP binding site [chemical binding]; other site 351348005883 Walker B motif; other site 351348005884 arginine finger; other site 351348005885 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 351348005886 metal ion-dependent adhesion site (MIDAS); other site 351348005887 TIGR03503 family protein; Region: TIGR03503 351348005888 hypothetical protein; Provisional; Region: PRK05170 351348005889 YcgL domain; Region: YcgL; pfam05166 351348005890 ribonuclease D; Region: rnd; TIGR01388 351348005891 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 351348005892 catalytic site [active] 351348005893 putative active site [active] 351348005894 putative substrate binding site [chemical binding]; other site 351348005895 HRDC domain; Region: HRDC; pfam00570 351348005896 recombination protein RecR; Reviewed; Region: recR; PRK00076 351348005897 RecR protein; Region: RecR; pfam02132 351348005898 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 351348005899 putative active site [active] 351348005900 putative metal-binding site [ion binding]; other site 351348005901 tetramer interface [polypeptide binding]; other site 351348005902 hypothetical protein; Validated; Region: PRK00153 351348005903 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 351348005904 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 351348005905 Walker A motif; other site 351348005906 ATP binding site [chemical binding]; other site 351348005907 Walker B motif; other site 351348005908 DNA polymerase III subunit delta'; Validated; Region: PRK08485 351348005909 arginine finger; other site 351348005910 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 351348005911 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 351348005912 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 351348005913 active site 351348005914 phosphate binding residues; other site 351348005915 catalytic residues [active] 351348005916 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 351348005917 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348005918 putative acyl-acceptor binding pocket; other site 351348005919 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351348005920 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 351348005921 putative NAD(P) binding site [chemical binding]; other site 351348005922 active site 351348005923 putative substrate binding site [chemical binding]; other site 351348005924 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 351348005925 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 351348005926 ATP binding site [chemical binding]; other site 351348005927 Mg2+ binding site [ion binding]; other site 351348005928 G-X-G motif; other site 351348005929 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 351348005930 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 351348005931 active site 351348005932 phosphorylation site [posttranslational modification] 351348005933 intermolecular recognition site; other site 351348005934 dimerization interface [polypeptide binding]; other site 351348005935 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 351348005936 Walker A motif; other site 351348005937 ATP binding site [chemical binding]; other site 351348005938 Walker B motif; other site 351348005939 arginine finger; other site 351348005940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348005941 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 351348005942 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 351348005943 TPR motif; other site 351348005944 binding surface 351348005945 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 351348005946 binding surface 351348005947 TPR motif; other site 351348005948 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 351348005949 binding surface 351348005950 TPR motif; other site 351348005951 PA14 domain; Region: PA14; cl08459 351348005952 PA14 domain; Region: PA14; cl08459 351348005953 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348005954 Interdomain contacts; other site 351348005955 Cytokine receptor motif; other site 351348005956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348005957 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 351348005958 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 351348005959 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 351348005960 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 351348005961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 351348005962 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351348005963 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 351348005964 active site 351348005965 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348005966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005967 Integrase core domain; Region: rve; pfam00665 351348005968 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348005969 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348005970 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348005971 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 351348005972 Walker A motif; other site 351348005973 ATP binding site [chemical binding]; other site 351348005974 Walker B motif; other site 351348005975 arginine finger; other site 351348005976 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348005977 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348005978 MULE transposase domain; Region: MULE; pfam10551 351348005979 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348005980 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 351348005981 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 351348005982 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 351348005983 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 351348005984 putative active site [active] 351348005985 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 351348005986 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 351348005987 active site 351348005988 dimer interface [polypeptide binding]; other site 351348005989 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 351348005990 Ligand Binding Site [chemical binding]; other site 351348005991 Molecular Tunnel; other site 351348005992 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 351348005993 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 351348005994 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348005995 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 351348005996 O-Antigen ligase; Region: Wzy_C; cl04850 351348005997 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 351348005998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348005999 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 351348006000 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351348006001 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 351348006002 active site 351348006003 Divergent PAP2 family; Region: DUF212; pfam02681 351348006004 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 351348006005 GtrA-like protein; Region: GtrA; pfam04138 351348006006 FAD binding domain; Region: FAD_binding_4; pfam01565 351348006007 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 351348006008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348006009 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 351348006010 NAD(P) binding site [chemical binding]; other site 351348006011 active site 351348006012 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348006013 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 351348006014 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 351348006015 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 351348006016 putative active site [active] 351348006017 putative metal binding site [ion binding]; other site 351348006018 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 351348006019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348006020 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 351348006021 putative ADP-binding pocket [chemical binding]; other site 351348006022 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 351348006023 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 351348006024 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 351348006025 DXD motif; other site 351348006026 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 351348006027 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 351348006028 putative active site [active] 351348006029 putative catalytic site [active] 351348006030 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 351348006031 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 351348006032 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 351348006033 Chain length determinant protein; Region: Wzz; cl15801 351348006034 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 351348006035 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 351348006036 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 351348006037 SLBB domain; Region: SLBB; pfam10531 351348006038 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 351348006039 Bacterial sugar transferase; Region: Bac_transf; pfam02397 351348006040 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 351348006041 2-methylcitrate dehydratase; Region: prpD; TIGR02330 351348006042 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 351348006043 aconitate hydratase; Validated; Region: PRK09277 351348006044 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 351348006045 substrate binding site [chemical binding]; other site 351348006046 ligand binding site [chemical binding]; other site 351348006047 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 351348006048 substrate binding site [chemical binding]; other site 351348006049 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 351348006050 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 351348006051 dimer interface [polypeptide binding]; other site 351348006052 active site 351348006053 citrylCoA binding site [chemical binding]; other site 351348006054 oxalacetate/citrate binding site [chemical binding]; other site 351348006055 coenzyme A binding site [chemical binding]; other site 351348006056 catalytic triad [active] 351348006057 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 351348006058 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 351348006059 tetramer interface [polypeptide binding]; other site 351348006060 active site 351348006061 Mg2+/Mn2+ binding site [ion binding]; other site 351348006062 Transcriptional regulators [Transcription]; Region: GntR; COG1802 351348006063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348006064 DNA-binding site [nucleotide binding]; DNA binding site 351348006065 FCD domain; Region: FCD; pfam07729 351348006066 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 351348006067 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351348006068 Ligand binding site; other site 351348006069 DXD motif; other site 351348006070 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 351348006071 putative activation loop; other site 351348006072 putative metal binding site [ion binding]; other site 351348006073 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 351348006074 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 351348006075 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 351348006076 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 351348006077 active site 351348006078 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 351348006079 tetramer interface; other site 351348006080 Helix-turn-helix domain; Region: HTH_19; pfam12844 351348006081 non-specific DNA binding site [nucleotide binding]; other site 351348006082 salt bridge; other site 351348006083 sequence-specific DNA binding site [nucleotide binding]; other site 351348006084 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 351348006085 RibD C-terminal domain; Region: RibD_C; cl17279 351348006086 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 351348006087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348006088 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 351348006089 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 351348006090 active site 351348006091 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 351348006092 putative NAD(P) binding site [chemical binding]; other site 351348006093 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 351348006094 YceI-like domain; Region: YceI; smart00867 351348006095 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 351348006096 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 351348006097 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351348006098 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351348006099 active site 351348006100 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351348006101 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 351348006102 putative NAD(P) binding site [chemical binding]; other site 351348006103 active site 351348006104 putative substrate binding site [chemical binding]; other site 351348006105 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 351348006106 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 351348006107 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 351348006108 ATP binding site [chemical binding]; other site 351348006109 active site 351348006110 substrate binding site [chemical binding]; other site 351348006111 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 351348006112 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 351348006113 dihydrodipicolinate synthase; Region: dapA; TIGR00674 351348006114 dimer interface [polypeptide binding]; other site 351348006115 active site 351348006116 catalytic residue [active] 351348006117 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351348006118 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 351348006119 catalytic triad [active] 351348006120 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351348006121 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351348006122 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 351348006123 CPxP motif; other site 351348006124 Peptidase family M48; Region: Peptidase_M48; cl12018 351348006125 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 351348006126 binding surface 351348006127 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351348006128 TPR motif; other site 351348006129 quinolinate synthetase; Provisional; Region: PRK09375 351348006130 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351348006131 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 351348006132 binding surface 351348006133 TPR motif; other site 351348006134 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351348006135 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348006136 ligand binding site [chemical binding]; other site 351348006137 translocation protein TolB; Provisional; Region: tolB; PRK00178 351348006138 TolB amino-terminal domain; Region: TolB_N; pfam04052 351348006139 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351348006140 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351348006141 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 351348006142 TolA protein; Region: tolA_full; TIGR02794 351348006143 TonB C terminal; Region: TonB_2; pfam13103 351348006144 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351348006145 TolR protein; Region: tolR; TIGR02801 351348006146 TolQ protein; Region: tolQ; TIGR02796 351348006147 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 351348006148 active site 351348006149 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 351348006150 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 351348006151 Walker A motif; other site 351348006152 ATP binding site [chemical binding]; other site 351348006153 Walker B motif; other site 351348006154 arginine finger; other site 351348006155 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 351348006156 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 351348006157 RuvA N terminal domain; Region: RuvA_N; pfam01330 351348006158 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 351348006159 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 351348006160 active site 351348006161 putative DNA-binding cleft [nucleotide binding]; other site 351348006162 dimer interface [polypeptide binding]; other site 351348006163 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 351348006164 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 351348006165 dimer interface [polypeptide binding]; other site 351348006166 anticodon binding site; other site 351348006167 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 351348006168 homodimer interface [polypeptide binding]; other site 351348006169 motif 1; other site 351348006170 active site 351348006171 motif 2; other site 351348006172 GAD domain; Region: GAD; pfam02938 351348006173 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 351348006174 active site 351348006175 motif 3; other site 351348006176 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 351348006177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348006178 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 351348006179 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 351348006180 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 351348006181 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 351348006182 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 351348006183 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 351348006184 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 351348006185 NAD binding site [chemical binding]; other site 351348006186 homodimer interface [polypeptide binding]; other site 351348006187 active site 351348006188 substrate binding site [chemical binding]; other site 351348006189 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 351348006190 nucleoside/Zn binding site; other site 351348006191 dimer interface [polypeptide binding]; other site 351348006192 catalytic motif [active] 351348006193 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 351348006194 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351348006195 catalytic Zn binding site [ion binding]; other site 351348006196 structural Zn binding site [ion binding]; other site 351348006197 NAD(P) binding site [chemical binding]; other site 351348006198 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 351348006199 additional DNA contacts [nucleotide binding]; other site 351348006200 mismatch recognition site; other site 351348006201 active site 351348006202 zinc binding site [ion binding]; other site 351348006203 DNA intercalation site [nucleotide binding]; other site 351348006204 Toxin of toxin-antitoxin type 1 system; Region: plasmid_Toxin; pfam12703 351348006205 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 351348006206 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 351348006207 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 351348006208 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348006209 MULE transposase domain; Region: MULE; pfam10551 351348006210 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 351348006211 Replication protein C (RepC); Region: RepC; pfam06504 351348006212 AAA domain; Region: AAA_25; pfam13481 351348006213 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 351348006214 Walker A motif; other site 351348006215 ATP binding site [chemical binding]; other site 351348006216 Walker B motif; other site 351348006217 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 351348006218 integrase; Provisional; Region: PRK09692 351348006219 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348006220 active site 351348006221 Int/Topo IB signature motif; other site 351348006222 GMP synthase; Reviewed; Region: guaA; PRK00074 351348006223 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 351348006224 AMP/PPi binding site [chemical binding]; other site 351348006225 candidate oxyanion hole; other site 351348006226 catalytic triad [active] 351348006227 potential glutamine specificity residues [chemical binding]; other site 351348006228 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 351348006229 ATP Binding subdomain [chemical binding]; other site 351348006230 Ligand Binding sites [chemical binding]; other site 351348006231 Dimerization subdomain; other site 351348006232 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 351348006233 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 351348006234 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 351348006235 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 351348006236 active site 351348006237 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 351348006238 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 351348006239 generic binding surface II; other site 351348006240 generic binding surface I; other site 351348006241 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 351348006242 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 351348006243 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 351348006244 acyl-activating enzyme (AAE) consensus motif; other site 351348006245 putative AMP binding site [chemical binding]; other site 351348006246 putative active site [active] 351348006247 putative CoA binding site [chemical binding]; other site 351348006248 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 351348006249 DNA-binding site [nucleotide binding]; DNA binding site 351348006250 RNA-binding motif; other site 351348006251 2-isopropylmalate synthase; Validated; Region: PRK03739 351348006252 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 351348006253 active site 351348006254 catalytic residues [active] 351348006255 metal binding site [ion binding]; metal-binding site 351348006256 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351348006257 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348006258 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 351348006259 putative DNA binding site [nucleotide binding]; other site 351348006260 putative Zn2+ binding site [ion binding]; other site 351348006261 AsnC family; Region: AsnC_trans_reg; pfam01037 351348006262 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348006263 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348006264 prolyl-tRNA synthetase; Provisional; Region: PRK09194 351348006265 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 351348006266 dimer interface [polypeptide binding]; other site 351348006267 motif 1; other site 351348006268 active site 351348006269 motif 2; other site 351348006270 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 351348006271 putative deacylase active site [active] 351348006272 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 351348006273 active site 351348006274 motif 3; other site 351348006275 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 351348006276 anticodon binding site; other site 351348006277 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 351348006278 FAD binding domain; Region: FAD_binding_4; pfam01565 351348006279 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 351348006280 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 351348006281 Low molecular weight phosphatase family; Region: LMWPc; cd00115 351348006282 active site 351348006283 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 351348006284 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 351348006285 Ligand binding site; other site 351348006286 oligomer interface; other site 351348006287 Uncharacterized conserved protein [Function unknown]; Region: COG2835 351348006288 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 351348006289 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 351348006290 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 351348006291 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351348006292 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 351348006293 Walker A/P-loop; other site 351348006294 ATP binding site [chemical binding]; other site 351348006295 Q-loop/lid; other site 351348006296 ABC transporter signature motif; other site 351348006297 Walker B; other site 351348006298 D-loop; other site 351348006299 H-loop/switch region; other site 351348006300 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351348006301 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348006302 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 351348006303 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 351348006304 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 351348006305 Competence protein; Region: Competence; pfam03772 351348006306 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 351348006307 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 351348006308 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 351348006309 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348006310 Walker A/P-loop; other site 351348006311 ATP binding site [chemical binding]; other site 351348006312 Q-loop/lid; other site 351348006313 ABC transporter signature motif; other site 351348006314 Walker B; other site 351348006315 D-loop; other site 351348006316 H-loop/switch region; other site 351348006317 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 351348006318 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348006319 FtsX-like permease family; Region: FtsX; pfam02687 351348006320 PilZ domain; Region: PilZ; pfam07238 351348006321 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 351348006322 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 351348006323 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 351348006324 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 351348006325 putative active site; other site 351348006326 catalytic triad [active] 351348006327 putative dimer interface [polypeptide binding]; other site 351348006328 MoxR-like ATPases [General function prediction only]; Region: COG0714 351348006329 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 351348006330 Walker A motif; other site 351348006331 ATP binding site [chemical binding]; other site 351348006332 Walker B motif; other site 351348006333 arginine finger; other site 351348006334 thioredoxin reductase; Provisional; Region: PRK10262 351348006335 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348006336 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348006337 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 351348006338 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 351348006339 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 351348006340 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 351348006341 rRNA binding site [nucleotide binding]; other site 351348006342 predicted 30S ribosome binding site; other site 351348006343 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 351348006344 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 351348006345 DNA-binding site [nucleotide binding]; DNA binding site 351348006346 RNA-binding motif; other site 351348006347 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351348006348 pseudouridine synthase; Region: TIGR00093 351348006349 active site 351348006350 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 351348006351 nudix motif; other site 351348006352 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 351348006353 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 351348006354 Ligand Binding Site [chemical binding]; other site 351348006355 putative lysogenization regulator; Reviewed; Region: PRK00218 351348006356 adenylosuccinate lyase; Provisional; Region: PRK09285 351348006357 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 351348006358 tetramer interface [polypeptide binding]; other site 351348006359 active site 351348006360 Uncharacterized conserved protein [Function unknown]; Region: COG2850 351348006361 Cupin-like domain; Region: Cupin_8; pfam13621 351348006362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348006363 Coenzyme A binding pocket [chemical binding]; other site 351348006364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348006365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348006366 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 351348006367 substrate binding pocket [chemical binding]; other site 351348006368 dimerization interface [polypeptide binding]; other site 351348006369 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 351348006370 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 351348006371 dimer interface [polypeptide binding]; other site 351348006372 phosphorylation site [posttranslational modification] 351348006373 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 351348006374 ATP binding site [chemical binding]; other site 351348006375 Mg2+ binding site [ion binding]; other site 351348006376 G-X-G motif; other site 351348006377 Response regulator receiver domain; Region: Response_reg; pfam00072 351348006378 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 351348006379 active site 351348006380 phosphorylation site [posttranslational modification] 351348006381 intermolecular recognition site; other site 351348006382 dimerization interface [polypeptide binding]; other site 351348006383 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351348006384 MarR family; Region: MarR; pfam01047 351348006385 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 351348006386 catalytic residues [active] 351348006387 dimer interface [polypeptide binding]; other site 351348006388 aminotransferase AlaT; Validated; Region: PRK09265 351348006389 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 351348006390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348006391 homodimer interface [polypeptide binding]; other site 351348006392 catalytic residue [active] 351348006393 heat shock protein HtpX; Provisional; Region: PRK05457 351348006394 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 351348006395 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 351348006396 ligand binding site [chemical binding]; other site 351348006397 NAD binding site [chemical binding]; other site 351348006398 catalytic site [active] 351348006399 homodimer interface [polypeptide binding]; other site 351348006400 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 351348006401 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 351348006402 ATP binding site [chemical binding]; other site 351348006403 Mg++ binding site [ion binding]; other site 351348006404 motif III; other site 351348006405 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 351348006406 nucleotide binding region [chemical binding]; other site 351348006407 ATP-binding site [chemical binding]; other site 351348006408 Protein of unknown function, DUF462; Region: DUF462; pfam04315 351348006409 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 351348006410 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 351348006411 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 351348006412 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348006413 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 351348006414 DsbD alpha interface [polypeptide binding]; other site 351348006415 catalytic residues [active] 351348006416 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 351348006417 CPxP motif; other site 351348006418 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 351348006419 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 351348006420 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 351348006421 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348006422 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348006423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348006424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348006425 metal binding site [ion binding]; metal-binding site 351348006426 active site 351348006427 I-site; other site 351348006428 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351348006429 TAP-like protein; Region: Abhydrolase_4; pfam08386 351348006430 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 351348006431 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 351348006432 Low-spin heme binding site [chemical binding]; other site 351348006433 Putative water exit pathway; other site 351348006434 Binuclear center (active site) [active] 351348006435 Putative proton exit pathway; other site 351348006436 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 351348006437 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 351348006438 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 351348006439 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 351348006440 Cytochrome c; Region: Cytochrom_C; pfam00034 351348006441 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351348006442 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 351348006443 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351348006444 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 351348006445 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 351348006446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 351348006447 FixH; Region: FixH; pfam05751 351348006448 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 351348006449 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 351348006450 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 351348006451 metal-binding site [ion binding] 351348006452 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351348006453 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 351348006454 motif II; other site 351348006455 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 351348006456 Family description; Region: DsbD_2; pfam13386 351348006457 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 351348006458 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 351348006459 Ligand Binding Site [chemical binding]; other site 351348006460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348006461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348006462 DNA-J related protein; Region: DNAJ_related; pfam12339 351348006463 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 351348006464 HSP70 interaction site [polypeptide binding]; other site 351348006465 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 351348006466 putative active site [active] 351348006467 putative metal binding site [ion binding]; other site 351348006468 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 351348006469 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 351348006470 Transposase domain (DUF772); Region: DUF772; pfam05598 351348006471 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351348006472 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348006473 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 351348006474 putative active site [active] 351348006475 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351348006476 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 351348006477 transmembrane helices; other site 351348006478 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 351348006479 Phasin protein; Region: Phasin_2; cl11491 351348006480 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 351348006481 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 351348006482 FOG: CBS domain [General function prediction only]; Region: COG0517 351348006483 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 351348006484 FOG: CBS domain [General function prediction only]; Region: COG0517 351348006485 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 351348006486 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 351348006487 PAS domain; Region: PAS_9; pfam13426 351348006488 putative active site [active] 351348006489 heme pocket [chemical binding]; other site 351348006490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348006491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348006492 metal binding site [ion binding]; metal-binding site 351348006493 active site 351348006494 I-site; other site 351348006495 Gram-negative bacterial tonB protein; Region: TonB; cl10048 351348006496 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 351348006497 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348006498 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 351348006499 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351348006500 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 351348006501 binding surface 351348006502 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351348006503 TPR motif; other site 351348006504 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 351348006505 binding surface 351348006506 TPR motif; other site 351348006507 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 351348006508 Tetratricopeptide repeat; Region: TPR_6; pfam13174 351348006509 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351348006510 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 351348006511 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 351348006512 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 351348006513 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348006514 catalytic residues [active] 351348006515 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 351348006516 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 351348006517 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351348006518 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 351348006519 ApbE family; Region: ApbE; pfam02424 351348006520 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 351348006521 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 351348006522 putative ligand binding site [chemical binding]; other site 351348006523 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 351348006524 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 351348006525 putative uracil binding site [chemical binding]; other site 351348006526 putative active site [active] 351348006527 glucokinase; Provisional; Region: glk; PRK00292 351348006528 glucokinase, proteobacterial type; Region: glk; TIGR00749 351348006529 phosphogluconate dehydratase; Validated; Region: PRK09054 351348006530 6-phosphogluconate dehydratase; Region: edd; TIGR01196 351348006531 pyruvate kinase; Provisional; Region: PRK05826 351348006532 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 351348006533 domain interfaces; other site 351348006534 active site 351348006535 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 351348006536 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 351348006537 active site 351348006538 intersubunit interface [polypeptide binding]; other site 351348006539 catalytic residue [active] 351348006540 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 351348006541 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 351348006542 putative active site [active] 351348006543 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 351348006544 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 351348006545 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 351348006546 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 351348006547 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 351348006548 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 351348006549 putative active site [active] 351348006550 periplasmic folding chaperone; Provisional; Region: PRK10788 351348006551 SurA N-terminal domain; Region: SurA_N_3; cl07813 351348006552 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351348006553 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 351348006554 IHF dimer interface [polypeptide binding]; other site 351348006555 IHF - DNA interface [nucleotide binding]; other site 351348006556 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 351348006557 Found in ATP-dependent protease La (LON); Region: LON; smart00464 351348006558 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 351348006559 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 351348006560 Walker A motif; other site 351348006561 ATP binding site [chemical binding]; other site 351348006562 Walker B motif; other site 351348006563 arginine finger; other site 351348006564 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351348006565 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 351348006566 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 351348006567 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 351348006568 Walker A motif; other site 351348006569 ATP binding site [chemical binding]; other site 351348006570 Walker B motif; other site 351348006571 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 351348006572 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 351348006573 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 351348006574 oligomer interface [polypeptide binding]; other site 351348006575 active site residues [active] 351348006576 trigger factor; Provisional; Region: tig; PRK01490 351348006577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348006578 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 351348006579 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 351348006580 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 351348006581 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 351348006582 homodimer interface [polypeptide binding]; other site 351348006583 NADP binding site [chemical binding]; other site 351348006584 substrate binding site [chemical binding]; other site 351348006585 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 351348006586 active site 351348006587 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 351348006588 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 351348006589 active site 351348006590 HIGH motif; other site 351348006591 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 351348006592 KMSKS motif; other site 351348006593 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 351348006594 tRNA binding surface [nucleotide binding]; other site 351348006595 anticodon binding site; other site 351348006596 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 351348006597 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351348006598 active site 351348006599 HIGH motif; other site 351348006600 nucleotide binding site [chemical binding]; other site 351348006601 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 351348006602 KMSKS motif; other site 351348006603 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 351348006604 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 351348006605 substrate binding site [chemical binding]; other site 351348006606 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 351348006607 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348006608 putative active site [active] 351348006609 putative metal binding site [ion binding]; other site 351348006610 cation transport regulator; Reviewed; Region: chaB; PRK09582 351348006611 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 351348006612 Response regulator receiver domain; Region: Response_reg; pfam00072 351348006613 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 351348006614 active site 351348006615 phosphorylation site [posttranslational modification] 351348006616 intermolecular recognition site; other site 351348006617 dimerization interface [polypeptide binding]; other site 351348006618 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; cl17257 351348006619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348006620 Integrase core domain; Region: rve; pfam00665 351348006621 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348006622 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348006623 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348006624 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 351348006625 Walker A motif; other site 351348006626 ATP binding site [chemical binding]; other site 351348006627 Walker B motif; other site 351348006628 arginine finger; other site 351348006629 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351348006630 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 351348006631 ligand binding site [chemical binding]; other site 351348006632 flexible hinge region; other site 351348006633 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 351348006634 putative switch regulator; other site 351348006635 non-specific DNA interactions [nucleotide binding]; other site 351348006636 DNA binding site [nucleotide binding] 351348006637 sequence specific DNA binding site [nucleotide binding]; other site 351348006638 putative cAMP binding site [chemical binding]; other site 351348006639 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 351348006640 active site 351348006641 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 351348006642 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 351348006643 FAD binding pocket [chemical binding]; other site 351348006644 FAD binding motif [chemical binding]; other site 351348006645 phosphate binding motif [ion binding]; other site 351348006646 beta-alpha-beta structure motif; other site 351348006647 NAD binding pocket [chemical binding]; other site 351348006648 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 351348006649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348006650 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 351348006651 putative dimerization interface [polypeptide binding]; other site 351348006652 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 351348006653 active site 351348006654 dinuclear metal binding site [ion binding]; other site 351348006655 dimerization interface [polypeptide binding]; other site 351348006656 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 351348006657 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 351348006658 substrate binding site [chemical binding]; other site 351348006659 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 351348006660 substrate binding site [chemical binding]; other site 351348006661 ligand binding site [chemical binding]; other site 351348006662 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 351348006663 Na binding site [ion binding]; other site 351348006664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348006665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348006666 thymidylate kinase; Validated; Region: tmk; PRK00698 351348006667 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 351348006668 TMP-binding site; other site 351348006669 ATP-binding site [chemical binding]; other site 351348006670 YceG-like family; Region: YceG; pfam02618 351348006671 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 351348006672 dimerization interface [polypeptide binding]; other site 351348006673 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 351348006674 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 351348006675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348006676 catalytic residue [active] 351348006677 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 351348006678 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351348006679 dimer interface [polypeptide binding]; other site 351348006680 active site 351348006681 acyl carrier protein; Provisional; Region: acpP; PRK00982 351348006682 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 351348006683 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 351348006684 NAD(P) binding site [chemical binding]; other site 351348006685 homotetramer interface [polypeptide binding]; other site 351348006686 homodimer interface [polypeptide binding]; other site 351348006687 active site 351348006688 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351348006689 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351348006690 putative phosphate acyltransferase; Provisional; Region: PRK05331 351348006691 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 351348006692 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 351348006693 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 351348006694 Maf-like protein; Region: Maf; pfam02545 351348006695 active site 351348006696 dimer interface [polypeptide binding]; other site 351348006697 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 351348006698 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 351348006699 tandem repeat interface [polypeptide binding]; other site 351348006700 oligomer interface [polypeptide binding]; other site 351348006701 active site residues [active] 351348006702 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 351348006703 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 351348006704 active site 351348006705 motif I; other site 351348006706 motif II; other site 351348006707 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 351348006708 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 351348006709 RNA binding surface [nucleotide binding]; other site 351348006710 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351348006711 active site 351348006712 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 351348006713 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 351348006714 homodimer interface [polypeptide binding]; other site 351348006715 oligonucleotide binding site [chemical binding]; other site 351348006716 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 351348006717 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 351348006718 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 351348006719 active site 351348006720 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 351348006721 YciI-like protein; Reviewed; Region: PRK11370 351348006722 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 351348006723 Bacterial SH3 domain; Region: SH3_3; pfam08239 351348006724 PilZ domain; Region: PilZ; pfam07238 351348006725 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 351348006726 phosphoenolpyruvate synthase; Validated; Region: PRK06464 351348006727 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 351348006728 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351348006729 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351348006730 PEP synthetase regulatory protein; Provisional; Region: PRK05339 351348006731 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 351348006732 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351348006733 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351348006734 Peptidase M16C associated; Region: M16C_assoc; pfam08367 351348006735 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351348006736 PEGA domain; Region: PEGA; pfam08308 351348006737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 351348006738 MORN repeat; Region: MORN; cl14787 351348006739 MORN repeat; Region: MORN; cl14787 351348006740 MORN repeat; Region: MORN; cl14787 351348006741 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 351348006742 Response regulator receiver domain; Region: Response_reg; pfam00072 351348006743 active site 351348006744 phosphorylation site [posttranslational modification] 351348006745 intermolecular recognition site; other site 351348006746 dimerization interface [polypeptide binding]; other site 351348006747 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 351348006748 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 351348006749 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 351348006750 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351348006751 HIGH motif; other site 351348006752 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351348006753 active site 351348006754 KMSKS motif; other site 351348006755 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 351348006756 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 351348006757 metal binding site [ion binding]; metal-binding site 351348006758 Predicted permeases [General function prediction only]; Region: COG0679 351348006759 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 351348006760 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351348006761 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 351348006762 Cytochrome P450; Region: p450; cl12078 351348006763 selenophosphate synthetase; Provisional; Region: PRK00943 351348006764 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 351348006765 dimerization interface [polypeptide binding]; other site 351348006766 putative ATP binding site [chemical binding]; other site 351348006767 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 351348006768 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 351348006769 homodimer interface [polypeptide binding]; other site 351348006770 substrate-cofactor binding pocket; other site 351348006771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348006772 catalytic residue [active] 351348006773 Predicted membrane protein [Function unknown]; Region: COG4267 351348006774 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_3; cd03813 351348006775 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348006776 HEAT repeats; Region: HEAT_2; pfam13646 351348006777 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 351348006778 GAF domain; Region: GAF_3; pfam13492 351348006779 Tetratricopeptide repeat; Region: TPR_15; pfam13429 351348006780 Tetratricopeptide repeats; Region: TPR; smart00028 351348006781 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 351348006782 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 351348006783 putative active site [active] 351348006784 short chain dehydrogenase; Provisional; Region: PRK07832 351348006785 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 351348006786 putative NAD(P) binding site [chemical binding]; other site 351348006787 homotetramer interface [polypeptide binding]; other site 351348006788 active site 351348006789 homodimer interface [polypeptide binding]; other site 351348006790 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 351348006791 active site 351348006792 dimer interfaces [polypeptide binding]; other site 351348006793 catalytic residues [active] 351348006794 Nitronate monooxygenase; Region: NMO; pfam03060 351348006795 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 351348006796 FMN binding site [chemical binding]; other site 351348006797 substrate binding site [chemical binding]; other site 351348006798 putative catalytic residue [active] 351348006799 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351348006800 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 351348006801 S-adenosylmethionine binding site [chemical binding]; other site 351348006802 HNH endonuclease; Region: HNH_4; pfam13395 351348006803 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 351348006804 PLD-like domain; Region: PLDc_2; pfam13091 351348006805 putative homodimer interface [polypeptide binding]; other site 351348006806 putative active site [active] 351348006807 catalytic site [active] 351348006808 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 351348006809 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 351348006810 ATP binding site [chemical binding]; other site 351348006811 putative Mg++ binding site [ion binding]; other site 351348006812 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 351348006813 nucleotide binding region [chemical binding]; other site 351348006814 ATP-binding site [chemical binding]; other site 351348006815 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 351348006816 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348006817 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 351348006818 non-specific DNA binding site [nucleotide binding]; other site 351348006819 salt bridge; other site 351348006820 sequence-specific DNA binding site [nucleotide binding]; other site 351348006821 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 351348006822 HPP family; Region: HPP; pfam04982 351348006823 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 351348006824 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 351348006825 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 351348006826 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 351348006827 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 351348006828 FMN binding site [chemical binding]; other site 351348006829 active site 351348006830 catalytic residues [active] 351348006831 substrate binding site [chemical binding]; other site 351348006832 transaldolase-like protein; Provisional; Region: PTZ00411 351348006833 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 351348006834 active site 351348006835 dimer interface [polypeptide binding]; other site 351348006836 catalytic residue [active] 351348006837 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 351348006838 putative metal binding site [ion binding]; other site 351348006839 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 351348006840 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 351348006841 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 351348006842 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 351348006843 active site 351348006844 catalytic site [active] 351348006845 metal binding site [ion binding]; metal-binding site 351348006846 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 351348006847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348006848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348006849 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348006850 Protein of unknown function (DUF539); Region: DUF539; cl01129 351348006851 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 351348006852 ApbE family; Region: ApbE; pfam02424 351348006853 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 351348006854 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 351348006855 catalytic loop [active] 351348006856 iron binding site [ion binding]; other site 351348006857 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 351348006858 FAD binding pocket [chemical binding]; other site 351348006859 FAD binding motif [chemical binding]; other site 351348006860 phosphate binding motif [ion binding]; other site 351348006861 beta-alpha-beta structure motif; other site 351348006862 NAD binding pocket [chemical binding]; other site 351348006863 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 351348006864 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 351348006865 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 351348006866 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 351348006867 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 351348006868 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 351348006869 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 351348006870 E3 interaction surface; other site 351348006871 lipoyl attachment site [posttranslational modification]; other site 351348006872 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 351348006873 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 351348006874 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351348006875 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351348006876 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 351348006877 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 351348006878 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 351348006879 ATP binding site [chemical binding]; other site 351348006880 putative Mg++ binding site [ion binding]; other site 351348006881 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 351348006882 nucleotide binding region [chemical binding]; other site 351348006883 ATP-binding site [chemical binding]; other site 351348006884 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 351348006885 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 351348006886 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 351348006887 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 351348006888 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351348006889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 351348006890 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348006891 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348006892 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348006893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348006894 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 351348006895 Lumazine binding domain; Region: Lum_binding; pfam00677 351348006896 Lumazine binding domain; Region: Lum_binding; pfam00677 351348006897 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 351348006898 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 351348006899 S-adenosylmethionine binding site [chemical binding]; other site 351348006900 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 351348006901 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 351348006902 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 351348006903 S-adenosylmethionine binding site [chemical binding]; other site 351348006904 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 351348006905 active site clefts [active] 351348006906 zinc binding site [ion binding]; other site 351348006907 dimer interface [polypeptide binding]; other site 351348006908 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 351348006909 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 351348006910 MoxR-like ATPases [General function prediction only]; Region: COG0714 351348006911 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 351348006912 Walker A motif; other site 351348006913 ATP binding site [chemical binding]; other site 351348006914 Walker B motif; other site 351348006915 arginine finger; other site 351348006916 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 351348006917 Protein of unknown function DUF58; Region: DUF58; pfam01882 351348006918 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 351348006919 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 351348006920 metal ion-dependent adhesion site (MIDAS); other site 351348006921 von Willebrand factor type A domain; Region: VWA_2; pfam13519 351348006922 metal ion-dependent adhesion site (MIDAS); other site 351348006923 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 351348006924 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351348006925 TPR motif; other site 351348006926 binding surface 351348006927 Oxygen tolerance; Region: BatD; pfam13584 351348006928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351348006929 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348006930 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 351348006931 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 351348006932 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 351348006933 binding surface 351348006934 TPR motif; other site 351348006935 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 351348006936 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 351348006937 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 351348006938 catalytic residues [active] 351348006939 central insert; other site 351348006940 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 351348006941 CcmE; Region: CcmE; pfam03100 351348006942 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 351348006943 heme exporter protein CcmC; Region: ccmC; TIGR01191 351348006944 heme exporter protein CcmB; Region: ccmB; TIGR01190 351348006945 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 351348006946 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348006947 Walker A/P-loop; other site 351348006948 ATP binding site [chemical binding]; other site 351348006949 Q-loop/lid; other site 351348006950 ABC transporter signature motif; other site 351348006951 Walker B; other site 351348006952 D-loop; other site 351348006953 H-loop/switch region; other site 351348006954 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 351348006955 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 351348006956 MoxR-like ATPases [General function prediction only]; Region: COG0714 351348006957 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 351348006958 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348006959 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 351348006960 Walker A motif; other site 351348006961 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 351348006962 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 351348006963 putative CheA interaction surface; other site 351348006964 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 351348006965 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351348006966 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 351348006967 P-loop; other site 351348006968 Magnesium ion binding site [ion binding]; other site 351348006969 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 351348006970 Magnesium ion binding site [ion binding]; other site 351348006971 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 351348006972 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 351348006973 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348006974 ligand binding site [chemical binding]; other site 351348006975 flagellar motor protein; Reviewed; Region: motC; PRK09109 351348006976 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 351348006977 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351348006978 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 351348006979 active site 351348006980 phosphorylation site [posttranslational modification] 351348006981 intermolecular recognition site; other site 351348006982 dimerization interface [polypeptide binding]; other site 351348006983 CheB methylesterase; Region: CheB_methylest; pfam01339 351348006984 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; cd00088 351348006985 putative binding surface; other site 351348006986 active site 351348006987 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351348006988 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351348006989 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 351348006990 ATP binding site [chemical binding]; other site 351348006991 Mg2+ binding site [ion binding]; other site 351348006992 G-X-G motif; other site 351348006993 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 351348006994 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 351348006995 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 351348006996 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 351348006997 active site 351348006998 phosphorylation site [posttranslational modification] 351348006999 intermolecular recognition site; other site 351348007000 dimerization interface [polypeptide binding]; other site 351348007001 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 351348007002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348007003 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351348007004 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 351348007005 DNA binding residues [nucleotide binding] 351348007006 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 351348007007 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 351348007008 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 351348007009 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 351348007010 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 351348007011 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 351348007012 FHIPEP family; Region: FHIPEP; pfam00771 351348007013 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348007014 active site 351348007015 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 351348007016 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 351348007017 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 351348007018 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 351348007019 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 351348007020 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 351348007021 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 351348007022 flagellar motor switch protein; Validated; Region: fliN; PRK05698 351348007023 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 351348007024 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 351348007025 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 351348007026 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 351348007027 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 351348007028 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 351348007029 putative binding surface; other site 351348007030 active site 351348007031 Response regulator receiver domain; Region: Response_reg; pfam00072 351348007032 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 351348007033 active site 351348007034 phosphorylation site [posttranslational modification] 351348007035 intermolecular recognition site; other site 351348007036 dimerization interface [polypeptide binding]; other site 351348007037 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351348007038 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 351348007039 anti sigma factor interaction site; other site 351348007040 regulatory phosphorylation site [posttranslational modification]; other site 351348007041 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 351348007042 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 351348007043 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351348007044 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 351348007045 Walker A motif/ATP binding site; other site 351348007046 Walker B motif; other site 351348007047 flagellar assembly protein H; Validated; Region: fliH; PRK05687 351348007048 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 351348007049 Flagellar assembly protein FliH; Region: FliH; pfam02108 351348007050 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 351348007051 MgtE intracellular N domain; Region: MgtE_N; smart00924 351348007052 FliG C-terminal domain; Region: FliG_C; pfam01706 351348007053 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 351348007054 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 351348007055 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 351348007056 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 351348007057 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348007058 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 351348007059 active site 351348007060 phosphorylation site [posttranslational modification] 351348007061 intermolecular recognition site; other site 351348007062 dimerization interface [polypeptide binding]; other site 351348007063 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 351348007064 Walker A motif; other site 351348007065 ATP binding site [chemical binding]; other site 351348007066 Walker B motif; other site 351348007067 arginine finger; other site 351348007068 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348007069 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351348007070 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 351348007071 putative active site [active] 351348007072 heme pocket [chemical binding]; other site 351348007073 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 351348007074 dimer interface [polypeptide binding]; other site 351348007075 phosphorylation site [posttranslational modification] 351348007076 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 351348007077 ATP binding site [chemical binding]; other site 351348007078 Mg2+ binding site [ion binding]; other site 351348007079 G-X-G motif; other site 351348007080 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348007081 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 351348007082 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 351348007083 Walker A motif; other site 351348007084 ATP binding site [chemical binding]; other site 351348007085 Walker B motif; other site 351348007086 arginine finger; other site 351348007087 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348007088 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 351348007089 Cell division inhibitor SulA; Region: SulA; cl01880 351348007090 LexA repressor; Validated; Region: PRK00215 351348007091 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 351348007092 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 351348007093 Catalytic site [active] 351348007094 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 351348007095 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 351348007096 Glutamine amidotransferase class-I; Region: GATase; pfam00117 351348007097 catalytic triad [active] 351348007098 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 351348007099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 351348007100 Family of unknown function (DUF490); Region: DUF490; pfam04357 351348007101 Family of unknown function (DUF490); Region: DUF490; pfam04357 351348007102 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 351348007103 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348007104 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348007105 Surface antigen; Region: Bac_surface_Ag; pfam01103 351348007106 shikimate kinase; Reviewed; Region: aroK; PRK00131 351348007107 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 351348007108 ADP binding site [chemical binding]; other site 351348007109 magnesium binding site [ion binding]; other site 351348007110 putative shikimate binding site; other site 351348007111 serine/threonine transporter SstT; Provisional; Region: PRK13628 351348007112 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 351348007113 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 351348007114 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 351348007115 dimer interface [polypeptide binding]; other site 351348007116 active site 351348007117 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 351348007118 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; cl00436 351348007119 CPxP motif; other site 351348007120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348007121 NAD(P) binding site [chemical binding]; other site 351348007122 active site 351348007123 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 351348007124 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 351348007125 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 351348007126 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 351348007127 ATP-grasp domain; Region: ATP-grasp; pfam02222 351348007128 superoxide dismutase; Provisional; Region: PRK10543 351348007129 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 351348007130 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 351348007131 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348007132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348007133 metal binding site [ion binding]; metal-binding site 351348007134 active site 351348007135 I-site; other site 351348007136 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 351348007137 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 351348007138 Peptidase family M48; Region: Peptidase_M48; cl12018 351348007139 type II secretion system protein D; Region: type_II_gspD; TIGR02517 351348007140 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351348007141 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351348007142 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351348007143 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351348007144 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 351348007145 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 351348007146 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 351348007147 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 351348007148 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 351348007149 ring oligomerisation interface [polypeptide binding]; other site 351348007150 ATP/Mg binding site [chemical binding]; other site 351348007151 stacking interactions; other site 351348007152 hinge regions; other site 351348007153 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 351348007154 oligomerisation interface [polypeptide binding]; other site 351348007155 mobile loop; other site 351348007156 roof hairpin; other site 351348007157 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 351348007158 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 351348007159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348007160 NAD(P) binding site [chemical binding]; other site 351348007161 active site 351348007162 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 351348007163 active site 351348007164 DNA binding site [nucleotide binding] 351348007165 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 351348007166 Fumarase C-terminus; Region: Fumerase_C; pfam05683 351348007167 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 351348007168 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348007169 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 351348007170 CoA-transferase family III; Region: CoA_transf_3; pfam02515 351348007171 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348007172 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348007173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007174 DNA recombination protein RmuC; Provisional; Region: PRK10361 351348007175 RmuC family; Region: RmuC; pfam02646 351348007176 Retropepsins; pepsin-like aspartate proteases; Region: retropepsin_like; cd00303 351348007177 inhibitor binding site; inhibition site 351348007178 catalytic motif [active] 351348007179 Catalytic residue [active] 351348007180 Active site flap [active] 351348007181 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 351348007182 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 351348007183 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 351348007184 BCCT family transporter; Region: BCCT; pfam02028 351348007185 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 351348007186 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 351348007187 active site 351348007188 FMN binding site [chemical binding]; other site 351348007189 substrate binding site [chemical binding]; other site 351348007190 3Fe-4S cluster binding site [ion binding]; other site 351348007191 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 351348007192 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351348007193 putative substrate translocation pore; other site 351348007194 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 351348007195 putative substrate translocation pore; other site 351348007196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351348007197 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 351348007198 Proline dehydrogenase; Region: Pro_dh; pfam01619 351348007199 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 351348007200 Glutamate binding site [chemical binding]; other site 351348007201 NAD binding site [chemical binding]; other site 351348007202 catalytic residues [active] 351348007203 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351348007204 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348007205 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 351348007206 putative DNA binding site [nucleotide binding]; other site 351348007207 putative Zn2+ binding site [ion binding]; other site 351348007208 AsnC family; Region: AsnC_trans_reg; pfam01037 351348007209 glycerate kinase; Region: TIGR00045 351348007210 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351348007211 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 351348007212 ligand binding site [chemical binding]; other site 351348007213 flexible hinge region; other site 351348007214 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 351348007215 putative switch regulator; other site 351348007216 non-specific DNA interactions [nucleotide binding]; other site 351348007217 DNA binding site [nucleotide binding] 351348007218 sequence specific DNA binding site [nucleotide binding]; other site 351348007219 putative cAMP binding site [chemical binding]; other site 351348007220 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 351348007221 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 351348007222 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351348007223 DNA binding residues [nucleotide binding] 351348007224 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 351348007225 IHF dimer interface [polypeptide binding]; other site 351348007226 IHF - DNA interface [nucleotide binding]; other site 351348007227 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 351348007228 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 351348007229 putative tRNA-binding site [nucleotide binding]; other site 351348007230 B3/4 domain; Region: B3_4; pfam03483 351348007231 tRNA synthetase B5 domain; Region: B5; smart00874 351348007232 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 351348007233 dimer interface [polypeptide binding]; other site 351348007234 motif 1; other site 351348007235 motif 3; other site 351348007236 motif 2; other site 351348007237 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 351348007238 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 351348007239 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 351348007240 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 351348007241 dimer interface [polypeptide binding]; other site 351348007242 motif 1; other site 351348007243 active site 351348007244 motif 2; other site 351348007245 motif 3; other site 351348007246 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 351348007247 23S rRNA binding site [nucleotide binding]; other site 351348007248 L21 binding site [polypeptide binding]; other site 351348007249 L13 binding site [polypeptide binding]; other site 351348007250 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 351348007251 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 351348007252 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 351348007253 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 351348007254 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 351348007255 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 351348007256 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 351348007257 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 351348007258 active site 351348007259 dimer interface [polypeptide binding]; other site 351348007260 motif 1; other site 351348007261 motif 2; other site 351348007262 motif 3; other site 351348007263 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 351348007264 anticodon binding site; other site 351348007265 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 351348007266 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 351348007267 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 351348007268 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 351348007269 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348007270 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 351348007271 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351348007272 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 351348007273 aminopeptidase N; Provisional; Region: pepN; PRK14015 351348007274 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 351348007275 active site 351348007276 Zn binding site [ion binding]; other site 351348007277 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 351348007278 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 351348007279 Rhomboid family; Region: Rhomboid; pfam01694 351348007280 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348007281 active site 351348007282 metal binding site [ion binding]; metal-binding site 351348007283 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 351348007284 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 351348007285 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351348007286 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 351348007287 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 351348007288 active site 351348007289 FMN binding site [chemical binding]; other site 351348007290 2,4-decadienoyl-CoA binding site; other site 351348007291 catalytic residue [active] 351348007292 4Fe-4S cluster binding site [ion binding]; other site 351348007293 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 351348007294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348007295 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348007296 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351348007297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007298 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348007299 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351348007300 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007301 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 351348007302 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 351348007303 active site 2 [active] 351348007304 active site 1 [active] 351348007305 AAA domain; Region: AAA_32; pfam13654 351348007306 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 351348007307 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351348007308 PilZ domain; Region: PilZ; pfam07238 351348007309 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 351348007310 recombinase A; Provisional; Region: recA; PRK09354 351348007311 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 351348007312 hexamer interface [polypeptide binding]; other site 351348007313 Walker A motif; other site 351348007314 ATP binding site [chemical binding]; other site 351348007315 Walker B motif; other site 351348007316 Competence-damaged protein; Region: CinA; cl00666 351348007317 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 351348007318 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 351348007319 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 351348007320 Probable Catalytic site; other site 351348007321 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 351348007322 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 351348007323 MutS domain I; Region: MutS_I; pfam01624 351348007324 MutS domain II; Region: MutS_II; pfam05188 351348007325 MutS domain III; Region: MutS_III; pfam05192 351348007326 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 351348007327 Walker A/P-loop; other site 351348007328 ATP binding site [chemical binding]; other site 351348007329 Q-loop/lid; other site 351348007330 ABC transporter signature motif; other site 351348007331 Walker B; other site 351348007332 D-loop; other site 351348007333 H-loop/switch region; other site 351348007334 Ferredoxin [Energy production and conversion]; Region: COG1146 351348007335 4Fe-4S binding domain; Region: Fer4; cl02805 351348007336 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 351348007337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 351348007338 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 351348007339 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 351348007340 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 351348007341 acyl-CoA synthetase; Validated; Region: PRK08162 351348007342 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 351348007343 acyl-activating enzyme (AAE) consensus motif; other site 351348007344 putative active site [active] 351348007345 AMP binding site [chemical binding]; other site 351348007346 putative CoA binding site [chemical binding]; other site 351348007347 PAS domain S-box; Region: sensory_box; TIGR00229 351348007348 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 351348007349 putative active site [active] 351348007350 heme pocket [chemical binding]; other site 351348007351 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 351348007352 dimer interface [polypeptide binding]; other site 351348007353 phosphorylation site [posttranslational modification] 351348007354 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 351348007355 ATP binding site [chemical binding]; other site 351348007356 Mg2+ binding site [ion binding]; other site 351348007357 G-X-G motif; other site 351348007358 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 351348007359 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 351348007360 active site 351348007361 phosphorylation site [posttranslational modification] 351348007362 intermolecular recognition site; other site 351348007363 dimerization interface [polypeptide binding]; other site 351348007364 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 351348007365 DNA binding residues [nucleotide binding] 351348007366 dimerization interface [polypeptide binding]; other site 351348007367 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 351348007368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348007369 DNA-binding site [nucleotide binding]; DNA binding site 351348007370 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 351348007371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348007372 homodimer interface [polypeptide binding]; other site 351348007373 catalytic residue [active] 351348007374 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 351348007375 HI0933-like protein; Region: HI0933_like; pfam03486 351348007376 hydroxyglutarate oxidase; Provisional; Region: PRK11728 351348007377 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 351348007378 PLD-like domain; Region: PLDc_2; pfam13091 351348007379 putative active site [active] 351348007380 catalytic site [active] 351348007381 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 351348007382 PLD-like domain; Region: PLDc_2; pfam13091 351348007383 putative active site [active] 351348007384 catalytic site [active] 351348007385 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 351348007386 Ligand Binding Site [chemical binding]; other site 351348007387 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 351348007388 Ligand Binding Site [chemical binding]; other site 351348007389 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 351348007390 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 351348007391 Sulfate transporter family; Region: Sulfate_transp; pfam00916 351348007392 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 351348007393 Predicted membrane protein [Function unknown]; Region: COG3174 351348007394 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 351348007395 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 351348007396 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351348007397 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348007398 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 351348007399 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 351348007400 putative metal binding site [ion binding]; other site 351348007401 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 351348007402 HSP70 interaction site [polypeptide binding]; other site 351348007403 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 351348007404 amidase; Provisional; Region: PRK07869 351348007405 Amidase; Region: Amidase; cl11426 351348007406 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348007407 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348007408 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 351348007409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348007410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348007411 metal binding site [ion binding]; metal-binding site 351348007412 active site 351348007413 I-site; other site 351348007414 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351348007415 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 351348007416 active site 351348007417 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 351348007418 dimerization interface [polypeptide binding]; other site 351348007419 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348007420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348007421 dimer interface [polypeptide binding]; other site 351348007422 putative CheW interface [polypeptide binding]; other site 351348007423 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348007424 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348007425 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348007426 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 351348007427 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351348007428 PYR/PP interface [polypeptide binding]; other site 351348007429 dimer interface [polypeptide binding]; other site 351348007430 TPP binding site [chemical binding]; other site 351348007431 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351348007432 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 351348007433 TPP-binding site [chemical binding]; other site 351348007434 dimer interface [polypeptide binding]; other site 351348007435 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 351348007436 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 351348007437 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 351348007438 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 351348007439 dimer interface [polypeptide binding]; other site 351348007440 active site 351348007441 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348007442 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348007443 active site 351348007444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348007445 NAD(P) binding site [chemical binding]; other site 351348007446 active site 351348007447 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 351348007448 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351348007449 DNA binding residues [nucleotide binding] 351348007450 putative dimer interface [polypeptide binding]; other site 351348007451 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 351348007452 isovaleryl-CoA dehydrogenase; Region: PLN02519 351348007453 substrate binding site [chemical binding]; other site 351348007454 FAD binding site [chemical binding]; other site 351348007455 catalytic base [active] 351348007456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 351348007457 Transposase; Region: DEDD_Tnp_IS110; pfam01548 351348007458 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351348007459 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 351348007460 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351348007461 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351348007462 enoyl-CoA hydratase; Provisional; Region: PRK05995 351348007463 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 351348007464 substrate binding site [chemical binding]; other site 351348007465 oxyanion hole (OAH) forming residues; other site 351348007466 trimer interface [polypeptide binding]; other site 351348007467 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 351348007468 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351348007469 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351348007470 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351348007471 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 351348007472 carboxyltransferase (CT) interaction site; other site 351348007473 biotinylation site [posttranslational modification]; other site 351348007474 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 351348007475 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 351348007476 active site 351348007477 catalytic residues [active] 351348007478 metal binding site [ion binding]; metal-binding site 351348007479 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 351348007480 active site 351348007481 catalytic triad [active] 351348007482 oxyanion hole [active] 351348007483 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 351348007484 CoenzymeA binding site [chemical binding]; other site 351348007485 subunit interaction site [polypeptide binding]; other site 351348007486 PHB binding site; other site 351348007487 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 351348007488 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351348007489 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 351348007490 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 351348007491 substrate binding site [chemical binding]; other site 351348007492 oxyanion hole (OAH) forming residues; other site 351348007493 trimer interface [polypeptide binding]; other site 351348007494 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 351348007495 enoyl-CoA hydratase; Provisional; Region: PRK09076 351348007496 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 351348007497 substrate binding site [chemical binding]; other site 351348007498 oxyanion hole (OAH) forming residues; other site 351348007499 trimer interface [polypeptide binding]; other site 351348007500 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348007501 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348007502 active site 351348007503 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 351348007504 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 351348007505 tetrameric interface [polypeptide binding]; other site 351348007506 NAD binding site [chemical binding]; other site 351348007507 catalytic residues [active] 351348007508 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 351348007509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007510 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348007511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007512 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 351348007513 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348007514 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 351348007515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348007516 Walker A/P-loop; other site 351348007517 ATP binding site [chemical binding]; other site 351348007518 Q-loop/lid; other site 351348007519 ABC transporter signature motif; other site 351348007520 Walker B; other site 351348007521 D-loop; other site 351348007522 H-loop/switch region; other site 351348007523 TOBE domain; Region: TOBE_2; pfam08402 351348007524 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 351348007525 dimer interface [polypeptide binding]; other site 351348007526 conserved gate region; other site 351348007527 putative PBP binding loops; other site 351348007528 ABC-ATPase subunit interface; other site 351348007529 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 351348007530 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 351348007531 dimer interface [polypeptide binding]; other site 351348007532 conserved gate region; other site 351348007533 putative PBP binding loops; other site 351348007534 ABC-ATPase subunit interface; other site 351348007535 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351348007536 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348007537 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348007538 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348007539 Proline racemase; Region: Pro_racemase; pfam05544 351348007540 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 351348007541 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351348007542 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351348007543 NAD(P) binding site [chemical binding]; other site 351348007544 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351348007545 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351348007546 Protein of unknown function, DUF393; Region: DUF393; pfam04134 351348007547 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 351348007548 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348007549 MULE transposase domain; Region: MULE; pfam10551 351348007550 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348007551 Uncharacterized conserved protein [Function unknown]; Region: COG1262 351348007552 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 351348007553 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 351348007554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348007555 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 351348007556 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 351348007557 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 351348007558 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 351348007559 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 351348007560 putative hydrophobic ligand binding site [chemical binding]; other site 351348007561 protein interface [polypeptide binding]; other site 351348007562 gate; other site 351348007563 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 351348007564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351348007565 hypothetical protein; Provisional; Region: PRK12378 351348007566 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 351348007567 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 351348007568 catalytic triad [active] 351348007569 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 351348007570 putative active site [active] 351348007571 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 351348007572 binding surface 351348007573 TPR motif; other site 351348007574 Tetratricopeptide repeat; Region: TPR_16; pfam13432 351348007575 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351348007576 Methyltransferase domain; Region: Methyltransf_12; pfam08242 351348007577 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348007578 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351348007579 Transcriptional regulator; Region: Rrf2; cl17282 351348007580 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348007581 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 351348007582 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 351348007583 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 351348007584 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351348007585 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351348007586 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 351348007587 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 351348007588 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 351348007589 active site 2 [active] 351348007590 active site 1 [active] 351348007591 CAAX protease self-immunity; Region: Abi; pfam02517 351348007592 enoyl-CoA hydratase; Provisional; Region: PRK06142 351348007593 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 351348007594 substrate binding site [chemical binding]; other site 351348007595 oxyanion hole (OAH) forming residues; other site 351348007596 trimer interface [polypeptide binding]; other site 351348007597 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 351348007598 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 351348007599 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 351348007600 Ligand Binding Site [chemical binding]; other site 351348007601 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 351348007602 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 351348007603 YcaO domain protein; Region: TIGR03549 351348007604 OsmC-like protein; Region: OsmC; pfam02566 351348007605 YcaO-like family; Region: YcaO; pfam02624 351348007606 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 351348007607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 351348007608 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 351348007609 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 351348007610 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 351348007611 putative lipid kinase; Reviewed; Region: PRK13057 351348007612 Rdx family; Region: Rdx; cl01407 351348007613 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 351348007614 S-adenosylmethionine binding site [chemical binding]; other site 351348007615 Protein of unknown function (DUF461); Region: DUF461; pfam04314 351348007616 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348007617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348007618 metal binding site [ion binding]; metal-binding site 351348007619 active site 351348007620 I-site; other site 351348007621 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 351348007622 Protein of unknown function (DUF533); Region: DUF533; pfam04391 351348007623 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 351348007624 putative metal binding site [ion binding]; other site 351348007625 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 351348007626 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 351348007627 PhnA protein; Region: PhnA; pfam03831 351348007628 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 351348007629 catalytic core [active] 351348007630 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 351348007631 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 351348007632 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351348007633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348007634 Walker A/P-loop; other site 351348007635 ATP binding site [chemical binding]; other site 351348007636 Q-loop/lid; other site 351348007637 ABC transporter signature motif; other site 351348007638 Walker B; other site 351348007639 D-loop; other site 351348007640 H-loop/switch region; other site 351348007641 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 351348007642 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 351348007643 Walker A/P-loop; other site 351348007644 ATP binding site [chemical binding]; other site 351348007645 Q-loop/lid; other site 351348007646 ABC transporter signature motif; other site 351348007647 Walker B; other site 351348007648 D-loop; other site 351348007649 H-loop/switch region; other site 351348007650 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 351348007651 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 351348007652 siderophore binding site; other site 351348007653 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 351348007654 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 351348007655 ABC-ATPase subunit interface; other site 351348007656 dimer interface [polypeptide binding]; other site 351348007657 putative PBP binding regions; other site 351348007658 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; cl00462 351348007659 ABC-ATPase subunit interface; other site 351348007660 dimer interface [polypeptide binding]; other site 351348007661 putative PBP binding regions; other site 351348007662 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 351348007663 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 351348007664 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 351348007665 N-terminal plug; other site 351348007666 ligand-binding site [chemical binding]; other site 351348007667 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 351348007668 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 351348007669 Uncharacterized conserved protein [Function unknown]; Region: COG3791 351348007670 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348007671 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348007672 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348007673 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 351348007674 Fasciclin domain; Region: Fasciclin; pfam02469 351348007675 Fasciclin domain; Region: Fasciclin; pfam02469 351348007676 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 351348007677 short chain dehydrogenase; Provisional; Region: PRK07035 351348007678 classical (c) SDRs; Region: SDR_c; cd05233 351348007679 NAD(P) binding site [chemical binding]; other site 351348007680 active site 351348007681 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 351348007682 catalytic core [active] 351348007683 Phosphotransferase enzyme family; Region: APH; pfam01636 351348007684 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 351348007685 putative active site [active] 351348007686 putative substrate binding site [chemical binding]; other site 351348007687 ATP binding site [chemical binding]; other site 351348007688 short chain dehydrogenase; Provisional; Region: PRK05650 351348007689 classical (c) SDRs; Region: SDR_c; cd05233 351348007690 NAD(P) binding site [chemical binding]; other site 351348007691 active site 351348007692 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 351348007693 Transposase; Region: DEDD_Tnp_IS110; pfam01548 351348007694 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351348007695 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348007696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348007697 active site 351348007698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348007699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348007700 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 351348007701 substrate binding pocket [chemical binding]; other site 351348007702 dimerization interface [polypeptide binding]; other site 351348007703 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 351348007704 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 351348007705 tartrate dehydrogenase; Region: TTC; TIGR02089 351348007706 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 351348007707 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 351348007708 inhibitor-cofactor binding pocket; inhibition site 351348007709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348007710 catalytic residue [active] 351348007711 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 351348007712 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 351348007713 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 351348007714 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 351348007715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348007716 homodimer interface [polypeptide binding]; other site 351348007717 catalytic residue [active] 351348007718 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 351348007719 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 351348007720 NAD binding site [chemical binding]; other site 351348007721 ligand binding site [chemical binding]; other site 351348007722 catalytic site [active] 351348007723 Fatty acid desaturase; Region: FA_desaturase; pfam00487 351348007724 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 351348007725 putative di-iron ligands [ion binding]; other site 351348007726 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348007727 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 351348007728 Integrase core domain; Region: rve; pfam00665 351348007729 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 351348007730 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348007731 Walker A motif; other site 351348007732 ATP binding site [chemical binding]; other site 351348007733 Walker B motif; other site 351348007734 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351348007735 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 351348007736 active site 351348007737 phosphorylation site [posttranslational modification] 351348007738 intermolecular recognition site; other site 351348007739 dimerization interface [polypeptide binding]; other site 351348007740 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 351348007741 DNA binding residues [nucleotide binding] 351348007742 dimerization interface [polypeptide binding]; other site 351348007743 acetyl-CoA synthetase; Provisional; Region: PRK00174 351348007744 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 351348007745 active site 351348007746 CoA binding site [chemical binding]; other site 351348007747 acyl-activating enzyme (AAE) consensus motif; other site 351348007748 AMP binding site [chemical binding]; other site 351348007749 acetate binding site [chemical binding]; other site 351348007750 fatty acyl-CoA reductase; Region: PLN02996 351348007751 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 351348007752 putative NAD(P) binding site [chemical binding]; other site 351348007753 active site 351348007754 putative substrate binding site [chemical binding]; other site 351348007755 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 351348007756 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 351348007757 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 351348007758 HDOD domain; Region: HDOD; pfam08668 351348007759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348007760 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 351348007761 phosphorylation site [posttranslational modification] 351348007762 dimer interface [polypeptide binding]; other site 351348007763 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 351348007764 ATP binding site [chemical binding]; other site 351348007765 Mg2+ binding site [ion binding]; other site 351348007766 G-X-G motif; other site 351348007767 Response regulator receiver domain; Region: Response_reg; pfam00072 351348007768 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 351348007769 active site 351348007770 phosphorylation site [posttranslational modification] 351348007771 intermolecular recognition site; other site 351348007772 dimerization interface [polypeptide binding]; other site 351348007773 PAS domain S-box; Region: sensory_box; TIGR00229 351348007774 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 351348007775 putative active site [active] 351348007776 heme pocket [chemical binding]; other site 351348007777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348007778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348007779 metal binding site [ion binding]; metal-binding site 351348007780 active site 351348007781 I-site; other site 351348007782 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 351348007783 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 351348007784 S-adenosylmethionine binding site [chemical binding]; other site 351348007785 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 351348007786 glutamate racemase; Provisional; Region: PRK00865 351348007787 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 351348007788 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 351348007789 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 351348007790 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 351348007791 putative NADH binding site [chemical binding]; other site 351348007792 putative active site [active] 351348007793 nudix motif; other site 351348007794 putative metal binding site [ion binding]; other site 351348007795 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 351348007796 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 351348007797 putative acyl-acceptor binding pocket; other site 351348007798 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 351348007799 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 351348007800 Glycoprotease family; Region: Peptidase_M22; pfam00814 351348007801 adenylate kinase; Reviewed; Region: adk; PRK00279 351348007802 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 351348007803 AMP-binding site [chemical binding]; other site 351348007804 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 351348007805 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 351348007806 putative deacylase active site [active] 351348007807 HDOD domain; Region: HDOD; pfam08668 351348007808 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 351348007809 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 351348007810 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14350 351348007811 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 351348007812 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 351348007813 homodimer interface [polypeptide binding]; other site 351348007814 metal binding site [ion binding]; metal-binding site 351348007815 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 351348007816 homodimer interface [polypeptide binding]; other site 351348007817 active site 351348007818 putative chemical substrate binding site [chemical binding]; other site 351348007819 metal binding site [ion binding]; metal-binding site 351348007820 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 351348007821 HD domain; Region: HD_4; pfam13328 351348007822 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 351348007823 synthetase active site [active] 351348007824 NTP binding site [chemical binding]; other site 351348007825 metal binding site [ion binding]; metal-binding site 351348007826 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 351348007827 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 351348007828 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 351348007829 TRAM domain; Region: TRAM; cl01282 351348007830 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 351348007831 S-adenosylmethionine binding site [chemical binding]; other site 351348007832 cysteine synthase B; Region: cysM; TIGR01138 351348007833 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 351348007834 dimer interface [polypeptide binding]; other site 351348007835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348007836 catalytic residue [active] 351348007837 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 351348007838 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 351348007839 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 351348007840 dimer interface [polypeptide binding]; other site 351348007841 phosphorylation site [posttranslational modification] 351348007842 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 351348007843 ATP binding site [chemical binding]; other site 351348007844 Mg2+ binding site [ion binding]; other site 351348007845 G-X-G motif; other site 351348007846 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 351348007847 active site 351348007848 phosphorylation site [posttranslational modification] 351348007849 intermolecular recognition site; other site 351348007850 dimerization interface [polypeptide binding]; other site 351348007851 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; cd00088 351348007852 putative binding surface; other site 351348007853 active site 351348007854 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 351348007855 active site 351348007856 hydrophilic channel; other site 351348007857 dimerization interface [polypeptide binding]; other site 351348007858 catalytic residues [active] 351348007859 active site lid [active] 351348007860 Recombination protein O N terminal; Region: RecO_N; pfam11967 351348007861 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 351348007862 Recombination protein O C terminal; Region: RecO_C; pfam02565 351348007863 GTPase Era; Reviewed; Region: era; PRK00089 351348007864 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 351348007865 G1 box; other site 351348007866 GTP/Mg2+ binding site [chemical binding]; other site 351348007867 Switch I region; other site 351348007868 G2 box; other site 351348007869 Switch II region; other site 351348007870 G3 box; other site 351348007871 G4 box; other site 351348007872 G5 box; other site 351348007873 KH domain; Region: KH_2; pfam07650 351348007874 ribonuclease III; Reviewed; Region: rnc; PRK00102 351348007875 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 351348007876 dimerization interface [polypeptide binding]; other site 351348007877 active site 351348007878 metal binding site [ion binding]; metal-binding site 351348007879 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 351348007880 dsRNA binding site [nucleotide binding]; other site 351348007881 signal peptidase I; Provisional; Region: PRK10861 351348007882 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 351348007883 Catalytic site [active] 351348007884 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 351348007885 GTP-binding protein LepA; Provisional; Region: PRK05433 351348007886 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 351348007887 G1 box; other site 351348007888 putative GEF interaction site [polypeptide binding]; other site 351348007889 GTP/Mg2+ binding site [chemical binding]; other site 351348007890 Switch I region; other site 351348007891 G2 box; other site 351348007892 G3 box; other site 351348007893 Switch II region; other site 351348007894 G4 box; other site 351348007895 G5 box; other site 351348007896 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 351348007897 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 351348007898 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 351348007899 CHASE domain; Region: CHASE; pfam03924 351348007900 PAS domain S-box; Region: sensory_box; TIGR00229 351348007901 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 351348007902 putative active site [active] 351348007903 heme pocket [chemical binding]; other site 351348007904 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348007905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348007906 metal binding site [ion binding]; metal-binding site 351348007907 active site 351348007908 I-site; other site 351348007909 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 351348007910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348007911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348007912 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 351348007913 putative effector binding pocket; other site 351348007914 putative dimerization interface [polypeptide binding]; other site 351348007915 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 351348007916 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 351348007917 substrate binding site [chemical binding]; other site 351348007918 catalytic Zn binding site [ion binding]; other site 351348007919 NAD binding site [chemical binding]; other site 351348007920 structural Zn binding site [ion binding]; other site 351348007921 dimer interface [polypeptide binding]; other site 351348007922 S-formylglutathione hydrolase; Region: PLN02442 351348007923 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 351348007924 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 351348007925 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 351348007926 putative active site [active] 351348007927 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348007928 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348007929 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 351348007930 Walker A motif; other site 351348007931 ATP binding site [chemical binding]; other site 351348007932 Walker B motif; other site 351348007933 arginine finger; other site 351348007934 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348007935 Integrase core domain; Region: rve; pfam00665 351348007936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348007937 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 351348007938 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351348007939 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 351348007940 protein binding site [polypeptide binding]; other site 351348007941 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 351348007942 protein binding site [polypeptide binding]; other site 351348007943 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 351348007944 anti-sigma E factor; Provisional; Region: rseB; PRK09455 351348007945 MucB/RseB family; Region: MucB_RseB; pfam03888 351348007946 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 351348007947 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 351348007948 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 351348007949 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348007950 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 351348007951 DNA binding residues [nucleotide binding] 351348007952 L-aspartate oxidase; Provisional; Region: PRK09077 351348007953 L-aspartate oxidase; Provisional; Region: PRK06175 351348007954 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351348007955 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 351348007956 putative global regulator; Reviewed; Region: PRK09559 351348007957 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 351348007958 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 351348007959 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 351348007960 ligand binding site [chemical binding]; other site 351348007961 active site 351348007962 UGI interface [polypeptide binding]; other site 351348007963 catalytic site [active] 351348007964 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 351348007965 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 351348007966 dimer interface [polypeptide binding]; other site 351348007967 putative anticodon binding site; other site 351348007968 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 351348007969 motif 1; other site 351348007970 active site 351348007971 motif 2; other site 351348007972 motif 3; other site 351348007973 peptide chain release factor 2; Provisional; Region: PRK08787 351348007974 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351348007975 RF-1 domain; Region: RF-1; pfam00472 351348007976 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 351348007977 DHH family; Region: DHH; pfam01368 351348007978 DHHA1 domain; Region: DHHA1; pfam02272 351348007979 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 351348007980 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 351348007981 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348007982 catalytic residue [active] 351348007983 homoserine dehydrogenase; Provisional; Region: PRK06349 351348007984 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 351348007985 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 351348007986 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 351348007987 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 351348007988 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 351348007989 dimerization domain [polypeptide binding]; other site 351348007990 dimer interface [polypeptide binding]; other site 351348007991 catalytic residues [active] 351348007992 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 351348007993 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 351348007994 active site 351348007995 Int/Topo IB signature motif; other site 351348007996 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 351348007997 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 351348007998 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 351348007999 RimM N-terminal domain; Region: RimM; pfam01782 351348008000 PRC-barrel domain; Region: PRC; pfam05239 351348008001 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 351348008002 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351348008003 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 351348008004 non-specific DNA binding site [nucleotide binding]; other site 351348008005 salt bridge; other site 351348008006 sequence-specific DNA binding site [nucleotide binding]; other site 351348008007 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 351348008008 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 351348008009 ATP binding site [chemical binding]; other site 351348008010 putative Mg++ binding site [ion binding]; other site 351348008011 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348008012 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348008013 substrate binding pocket [chemical binding]; other site 351348008014 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348008015 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 351348008016 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348008017 Walker A/P-loop; other site 351348008018 ATP binding site [chemical binding]; other site 351348008019 Q-loop/lid; other site 351348008020 ABC transporter signature motif; other site 351348008021 Walker B; other site 351348008022 D-loop; other site 351348008023 H-loop/switch region; other site 351348008024 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348008025 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 351348008026 dimer interface [polypeptide binding]; other site 351348008027 conserved gate region; other site 351348008028 putative PBP binding loops; other site 351348008029 ABC-ATPase subunit interface; other site 351348008030 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 351348008031 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 351348008032 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 351348008033 active site 351348008034 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 351348008035 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 351348008036 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 351348008037 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 351348008038 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 351348008039 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351348008040 Walker A/P-loop; other site 351348008041 ATP binding site [chemical binding]; other site 351348008042 Q-loop/lid; other site 351348008043 ABC transporter signature motif; other site 351348008044 Walker B; other site 351348008045 D-loop; other site 351348008046 H-loop/switch region; other site 351348008047 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 351348008048 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 351348008049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348008050 Walker A/P-loop; other site 351348008051 ATP binding site [chemical binding]; other site 351348008052 Q-loop/lid; other site 351348008053 ABC transporter signature motif; other site 351348008054 Walker B; other site 351348008055 D-loop; other site 351348008056 H-loop/switch region; other site 351348008057 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351348008058 Guanylate kinase; Region: Guanylate_kin; pfam00625 351348008059 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348008060 active site 351348008061 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 351348008062 putative hydrolase; Provisional; Region: PRK02113 351348008063 tellurium resistance terB-like protein; Region: terB_like; cd07177 351348008064 metal binding site [ion binding]; metal-binding site 351348008065 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 351348008066 HSP70 interaction site [polypeptide binding]; other site 351348008067 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 351348008068 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; cl02788 351348008069 PIF1-like helicase; Region: PIF1; pfam05970 351348008070 AAA domain; Region: AAA_30; pfam13604 351348008071 Family description; Region: UvrD_C_2; pfam13538 351348008072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 351348008073 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 351348008074 active site 351348008075 catalytic residues [active] 351348008076 DNA binding site [nucleotide binding] 351348008077 Int/Topo IB signature motif; other site 351348008078 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 351348008079 active site 351348008080 catalytic residues [active] 351348008081 DNA binding site [nucleotide binding] 351348008082 Int/Topo IB signature motif; other site 351348008083 signal recognition particle protein; Provisional; Region: PRK10867 351348008084 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 351348008085 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 351348008086 P loop; other site 351348008087 GTP binding site [chemical binding]; other site 351348008088 Signal peptide binding domain; Region: SRP_SPB; pfam02978 351348008089 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 351348008090 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 351348008091 Domain of unknown function DUF21; Region: DUF21; pfam01595 351348008092 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 351348008093 Transporter associated domain; Region: CorC_HlyC; smart01091 351348008094 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 351348008095 Gram-negative bacterial tonB protein; Region: TonB; cl10048 351348008096 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 351348008097 putative GSH binding site [chemical binding]; other site 351348008098 catalytic residues [active] 351348008099 ornithine carbamoyltransferase; Provisional; Region: PRK00779 351348008100 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351348008101 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351348008102 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351348008103 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 351348008104 Walker A/P-loop; other site 351348008105 ATP binding site [chemical binding]; other site 351348008106 Q-loop/lid; other site 351348008107 ABC transporter signature motif; other site 351348008108 Walker B; other site 351348008109 D-loop; other site 351348008110 H-loop/switch region; other site 351348008111 TOBE domain; Region: TOBE_2; pfam08402 351348008112 glycerol kinase; Provisional; Region: glpK; PRK00047 351348008113 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 351348008114 N- and C-terminal domain interface [polypeptide binding]; other site 351348008115 active site 351348008116 MgATP binding site [chemical binding]; other site 351348008117 catalytic site [active] 351348008118 metal binding site [ion binding]; metal-binding site 351348008119 glycerol binding site [chemical binding]; other site 351348008120 homotetramer interface [polypeptide binding]; other site 351348008121 homodimer interface [polypeptide binding]; other site 351348008122 FBP binding site [chemical binding]; other site 351348008123 protein IIAGlc interface [polypeptide binding]; other site 351348008124 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 351348008125 dimerization interface [polypeptide binding]; other site 351348008126 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 351348008127 dimer interface [polypeptide binding]; other site 351348008128 phosphorylation site [posttranslational modification] 351348008129 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 351348008130 ATP binding site [chemical binding]; other site 351348008131 Mg2+ binding site [ion binding]; other site 351348008132 G-X-G motif; other site 351348008133 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 351348008134 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 351348008135 active site 351348008136 phosphorylation site [posttranslational modification] 351348008137 intermolecular recognition site; other site 351348008138 dimerization interface [polypeptide binding]; other site 351348008139 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 351348008140 DNA binding site [nucleotide binding] 351348008141 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 351348008142 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348008143 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351348008144 putative acyl-acceptor binding pocket; other site 351348008145 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 351348008146 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348008147 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 351348008148 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 351348008149 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 351348008150 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351348008151 active site 351348008152 catalytic tetrad [active] 351348008153 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348008154 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 351348008155 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 351348008156 active site 351348008157 Pectinacetylesterase; Region: PAE; pfam03283 351348008158 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 351348008159 active site 351348008160 DNA polymerase IV; Validated; Region: PRK02406 351348008161 DNA binding site [nucleotide binding] 351348008162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 351348008163 HopJ type III effector protein; Region: HopJ; pfam08888 351348008164 septum formation inhibitor; Reviewed; Region: minC; PRK00339 351348008165 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 351348008166 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 351348008167 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 351348008168 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 351348008169 Switch I; other site 351348008170 Switch II; other site 351348008171 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 351348008172 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 351348008173 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 351348008174 putative lipid binding site [chemical binding]; other site 351348008175 FOG: CBS domain [General function prediction only]; Region: COG0517 351348008176 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 351348008177 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 351348008178 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 351348008179 putative active site [active] 351348008180 PhoH-like protein; Region: PhoH; pfam02562 351348008181 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348008182 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351348008183 Helix-turn-helix domain; Region: HTH_18; pfam12833 351348008184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348008185 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 351348008186 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 351348008187 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 351348008188 phosphate binding site [ion binding]; other site 351348008189 hypothetical protein; Validated; Region: PRK07586 351348008190 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351348008191 PYR/PP interface [polypeptide binding]; other site 351348008192 dimer interface [polypeptide binding]; other site 351348008193 TPP binding site [chemical binding]; other site 351348008194 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 351348008195 TPP-binding site [chemical binding]; other site 351348008196 dimer interface [polypeptide binding]; other site 351348008197 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 351348008198 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 351348008199 dimerization interface [polypeptide binding]; other site 351348008200 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348008201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348008202 dimer interface [polypeptide binding]; other site 351348008203 putative CheW interface [polypeptide binding]; other site 351348008204 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348008205 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 351348008206 active site 351348008207 phosphorylation site [posttranslational modification] 351348008208 intermolecular recognition site; other site 351348008209 dimerization interface [polypeptide binding]; other site 351348008210 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 351348008211 Walker A motif; other site 351348008212 ATP binding site [chemical binding]; other site 351348008213 Walker B motif; other site 351348008214 arginine finger; other site 351348008215 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348008216 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 351348008217 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 351348008218 dimer interface [polypeptide binding]; other site 351348008219 phosphorylation site [posttranslational modification] 351348008220 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 351348008221 ATP binding site [chemical binding]; other site 351348008222 Mg2+ binding site [ion binding]; other site 351348008223 G-X-G motif; other site 351348008224 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 351348008225 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 351348008226 DctM-like transporters; Region: DctM; pfam06808 351348008227 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 351348008228 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348008229 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 351348008230 Predicted deacylase [General function prediction only]; Region: COG3608 351348008231 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 351348008232 putative active site [active] 351348008233 Zn binding site [ion binding]; other site 351348008234 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 351348008235 RimK-like ATP-grasp domain; Region: RimK; pfam08443 351348008236 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 351348008237 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 351348008238 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351348008239 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 351348008240 DNA photolyase; Region: DNA_photolyase; pfam00875 351348008241 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 351348008242 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 351348008243 ATP binding site [chemical binding]; other site 351348008244 substrate interface [chemical binding]; other site 351348008245 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 351348008246 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 351348008247 peptide chain release factor 1; Validated; Region: prfA; PRK00591 351348008248 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351348008249 RF-1 domain; Region: RF-1; pfam00472 351348008250 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 351348008251 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 351348008252 tRNA; other site 351348008253 putative tRNA binding site [nucleotide binding]; other site 351348008254 putative NADP binding site [chemical binding]; other site 351348008255 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 351348008256 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 351348008257 TPR motif; other site 351348008258 binding surface 351348008259 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 351348008260 TPR motif; other site 351348008261 binding surface 351348008262 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 351348008263 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 351348008264 binding surface 351348008265 TPR motif; other site 351348008266 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 351348008267 binding surface 351348008268 TPR motif; other site 351348008269 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 351348008270 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 351348008271 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 351348008272 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 351348008273 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 351348008274 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 351348008275 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 351348008276 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348008277 active site 351348008278 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 351348008279 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 351348008280 5S rRNA interface [nucleotide binding]; other site 351348008281 CTC domain interface [polypeptide binding]; other site 351348008282 L16 interface [polypeptide binding]; other site 351348008283 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 351348008284 putative active site [active] 351348008285 catalytic residue [active] 351348008286 GTP-binding protein YchF; Reviewed; Region: PRK09601 351348008287 YchF GTPase; Region: YchF; cd01900 351348008288 G1 box; other site 351348008289 GTP/Mg2+ binding site [chemical binding]; other site 351348008290 Switch I region; other site 351348008291 G2 box; other site 351348008292 Switch II region; other site 351348008293 G3 box; other site 351348008294 G4 box; other site 351348008295 G5 box; other site 351348008296 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 351348008297 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 351348008298 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 351348008299 Beta-lactamase; Region: Beta-lactamase; pfam00144 351348008300 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 351348008301 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 351348008302 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 351348008303 homodimer interface [polypeptide binding]; other site 351348008304 substrate-cofactor binding pocket; other site 351348008305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348008306 catalytic residue [active] 351348008307 lipoyl synthase; Provisional; Region: PRK05481 351348008308 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351348008309 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 351348008310 dimerization interface [polypeptide binding]; other site 351348008311 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348008312 dimer interface [polypeptide binding]; other site 351348008313 putative CheW interface [polypeptide binding]; other site 351348008314 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 351348008315 Protein export membrane protein; Region: SecD_SecF; cl14618 351348008316 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 351348008317 dimer interface [polypeptide binding]; other site 351348008318 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 351348008319 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 351348008320 GTP/Mg2+ binding site [chemical binding]; other site 351348008321 G4 box; other site 351348008322 G5 box; other site 351348008323 G1 box; other site 351348008324 Switch I region; other site 351348008325 G2 box; other site 351348008326 G3 box; other site 351348008327 Switch II region; other site 351348008328 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 351348008329 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 351348008330 ligand binding site [chemical binding]; other site 351348008331 flexible hinge region; other site 351348008332 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 351348008333 non-specific DNA interactions [nucleotide binding]; other site 351348008334 DNA binding site [nucleotide binding] 351348008335 sequence specific DNA binding site [nucleotide binding]; other site 351348008336 putative cAMP binding site [chemical binding]; other site 351348008337 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 351348008338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348008339 NAD(P) binding site [chemical binding]; other site 351348008340 active site 351348008341 alanine racemase; Reviewed; Region: alr; PRK00053 351348008342 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 351348008343 active site 351348008344 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351348008345 substrate binding site [chemical binding]; other site 351348008346 catalytic residues [active] 351348008347 dimer interface [polypeptide binding]; other site 351348008348 replicative DNA helicase; Provisional; Region: PRK05748 351348008349 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 351348008350 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 351348008351 Walker A motif; other site 351348008352 ATP binding site [chemical binding]; other site 351348008353 Walker B motif; other site 351348008354 DNA binding loops [nucleotide binding] 351348008355 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 351348008356 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 351348008357 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 351348008358 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 351348008359 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 351348008360 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 351348008361 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 351348008362 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351348008363 exoribonuclease R; Provisional; Region: PRK11642 351348008364 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 351348008365 RNB domain; Region: RNB; pfam00773 351348008366 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 351348008367 RNA binding site [nucleotide binding]; other site 351348008368 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 351348008369 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351348008370 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348008371 Transposase domain (DUF772); Region: DUF772; pfam05598 351348008372 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 351348008373 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348008374 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351348008375 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348008376 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348008377 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 351348008378 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351348008379 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 351348008380 ATP binding site [chemical binding]; other site 351348008381 putative Mg++ binding site [ion binding]; other site 351348008382 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 351348008383 Protein of unknown function DUF45; Region: DUF45; pfam01863 351348008384 Protein of unknown function DUF91; Region: DUF91; cl00709 351348008385 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 351348008386 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; cl17257 351348008387 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348008388 Integrase core domain; Region: rve; pfam00665 351348008389 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348008390 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348008391 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348008392 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 351348008393 Walker A motif; other site 351348008394 ATP binding site [chemical binding]; other site 351348008395 Walker B motif; other site 351348008396 arginine finger; other site 351348008397 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348008398 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348008399 active site 351348008400 aromatic acid decarboxylase; Validated; Region: PRK05920 351348008401 Flavoprotein; Region: Flavoprotein; pfam02441 351348008402 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 351348008403 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351348008404 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348008405 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348008406 6-phosphofructokinase; Provisional; Region: PRK14072 351348008407 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 351348008408 active site 351348008409 ADP/pyrophosphate binding site [chemical binding]; other site 351348008410 dimerization interface [polypeptide binding]; other site 351348008411 allosteric effector site; other site 351348008412 fructose-1,6-bisphosphate binding site; other site 351348008413 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 351348008414 GSH binding site [chemical binding]; other site 351348008415 catalytic residues [active] 351348008416 Predicted membrane protein [Function unknown]; Region: COG1238 351348008417 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351348008418 ABC1 family; Region: ABC1; pfam03109 351348008419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348008420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348008421 metal binding site [ion binding]; metal-binding site 351348008422 active site 351348008423 I-site; other site 351348008424 lipoate-protein ligase B; Provisional; Region: PRK14342 351348008425 Protein of unknown function (DUF493); Region: DUF493; pfam04359 351348008426 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 351348008427 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 351348008428 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 351348008429 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 351348008430 rare lipoprotein A; Region: rlpA; TIGR00413 351348008431 Sporulation related domain; Region: SPOR; pfam05036 351348008432 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 351348008433 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 351348008434 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351348008435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351348008436 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 351348008437 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 351348008438 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 351348008439 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 351348008440 active site 351348008441 (T/H)XGH motif; other site 351348008442 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 351348008443 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 351348008444 putative catalytic cysteine [active] 351348008445 CCC1-related family of proteins; Region: CCC1_like; cl00278 351348008446 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348008447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348008448 metal binding site [ion binding]; metal-binding site 351348008449 active site 351348008450 I-site; other site 351348008451 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348008452 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348008453 metal binding site [ion binding]; metal-binding site 351348008454 active site 351348008455 I-site; other site 351348008456 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 351348008457 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 351348008458 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 351348008459 active site 351348008460 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 351348008461 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351348008462 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 351348008463 ligand binding site [chemical binding]; other site 351348008464 flexible hinge region; other site 351348008465 HDOD domain; Region: HDOD; pfam08668 351348008466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348008467 Zn2+ binding site [ion binding]; other site 351348008468 Mg2+ binding site [ion binding]; other site 351348008469 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 351348008470 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348008471 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351348008472 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351348008473 haloalkane dehalogenase; Provisional; Region: PRK00870 351348008474 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 351348008475 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 351348008476 active site 351348008477 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 351348008478 catalytic triad [active] 351348008479 dimer interface [polypeptide binding]; other site 351348008480 helicase 45; Provisional; Region: PTZ00424 351348008481 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 351348008482 ATP binding site [chemical binding]; other site 351348008483 Mg++ binding site [ion binding]; other site 351348008484 motif III; other site 351348008485 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 351348008486 nucleotide binding region [chemical binding]; other site 351348008487 ATP-binding site [chemical binding]; other site 351348008488 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 351348008489 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 351348008490 folate binding site [chemical binding]; other site 351348008491 NADP+ binding site [chemical binding]; other site 351348008492 thymidylate synthase; Reviewed; Region: thyA; PRK01827 351348008493 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 351348008494 dimerization interface [polypeptide binding]; other site 351348008495 active site 351348008496 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 351348008497 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351348008498 NRDE protein; Region: NRDE; cl01315 351348008499 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 351348008500 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351348008501 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351348008502 substrate binding pocket [chemical binding]; other site 351348008503 chain length determination region; other site 351348008504 substrate-Mg2+ binding site; other site 351348008505 catalytic residues [active] 351348008506 aspartate-rich region 1; other site 351348008507 active site lid residues [active] 351348008508 aspartate-rich region 2; other site 351348008509 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 351348008510 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 351348008511 TPP-binding site; other site 351348008512 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 351348008513 PYR/PP interface [polypeptide binding]; other site 351348008514 dimer interface [polypeptide binding]; other site 351348008515 TPP binding site [chemical binding]; other site 351348008516 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351348008517 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 351348008518 dimerization interface [polypeptide binding]; other site 351348008519 active site 351348008520 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 351348008521 trimer interface [polypeptide binding]; other site 351348008522 dimer interface [polypeptide binding]; other site 351348008523 putative active site [active] 351348008524 hypothetical protein; Provisional; Region: PRK08999 351348008525 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 351348008526 active site 351348008527 8-oxo-dGMP binding site [chemical binding]; other site 351348008528 nudix motif; other site 351348008529 metal binding site [ion binding]; metal-binding site 351348008530 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 351348008531 active site 351348008532 thiamine phosphate binding site [chemical binding]; other site 351348008533 pyrophosphate binding site [ion binding]; other site 351348008534 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 351348008535 heterotetramer interface [polypeptide binding]; other site 351348008536 active site pocket [active] 351348008537 cleavage site 351348008538 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 351348008539 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 351348008540 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 351348008541 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; cl17351 351348008542 nucleotide binding region [chemical binding]; other site 351348008543 ATP-binding site [chemical binding]; other site 351348008544 SEC-C motif; Region: SEC-C; pfam02810 351348008545 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351348008546 Peptidase family M23; Region: Peptidase_M23; pfam01551 351348008547 Protein of unknown function (DUF721); Region: DUF721; pfam05258 351348008548 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 351348008549 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 351348008550 cell division protein FtsZ; Validated; Region: PRK09330 351348008551 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 351348008552 nucleotide binding site [chemical binding]; other site 351348008553 SulA interaction site; other site 351348008554 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 351348008555 cell division protein FtsA; Region: ftsA; TIGR01174 351348008556 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351348008557 nucleotide binding site [chemical binding]; other site 351348008558 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 351348008559 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351348008560 Cell division protein FtsA; Region: FtsA; pfam14450 351348008561 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 351348008562 Cell division protein FtsQ; Region: FtsQ; pfam03799 351348008563 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 351348008564 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 351348008565 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351348008566 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 351348008567 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351348008568 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348008569 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348008570 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 351348008571 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 351348008572 active site 351348008573 homodimer interface [polypeptide binding]; other site 351348008574 cell division protein FtsW; Region: ftsW; TIGR02614 351348008575 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 351348008576 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348008577 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348008578 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 351348008579 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 351348008580 Mg++ binding site [ion binding]; other site 351348008581 putative catalytic motif [active] 351348008582 putative substrate binding site [chemical binding]; other site 351348008583 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 351348008584 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351348008585 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348008586 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348008587 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 351348008588 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351348008589 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351348008590 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351348008591 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 351348008592 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351348008593 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351348008594 Cell division protein FtsL; Region: FtsL; pfam04999 351348008595 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 351348008596 MraW methylase family; Region: Methyltransf_5; cl17771 351348008597 cell division protein MraZ; Reviewed; Region: PRK00326 351348008598 MraZ protein; Region: MraZ; pfam02381 351348008599 MraZ protein; Region: MraZ; pfam02381 351348008600 Predicted methyltransferases [General function prediction only]; Region: COG0313 351348008601 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 351348008602 putative SAM binding site [chemical binding]; other site 351348008603 putative homodimer interface [polypeptide binding]; other site 351348008604 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 351348008605 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 351348008606 putative ligand binding site [chemical binding]; other site 351348008607 hypothetical protein; Reviewed; Region: PRK12497 351348008608 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 351348008609 dimer interface [polypeptide binding]; other site 351348008610 active site 351348008611 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 351348008612 stringent starvation protein A; Provisional; Region: sspA; PRK09481 351348008613 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351348008614 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 351348008615 dimer interface [polypeptide binding]; other site 351348008616 N-terminal domain interface [polypeptide binding]; other site 351348008617 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 351348008618 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 351348008619 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 351348008620 Qi binding site; other site 351348008621 intrachain domain interface; other site 351348008622 interchain domain interface [polypeptide binding]; other site 351348008623 heme bH binding site [chemical binding]; other site 351348008624 heme bL binding site [chemical binding]; other site 351348008625 Qo binding site; other site 351348008626 interchain domain interface [polypeptide binding]; other site 351348008627 intrachain domain interface; other site 351348008628 Qi binding site; other site 351348008629 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 351348008630 Qo binding site; other site 351348008631 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 351348008632 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 351348008633 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 351348008634 [2Fe-2S] cluster binding site [ion binding]; other site 351348008635 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 351348008636 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 351348008637 23S rRNA interface [nucleotide binding]; other site 351348008638 L3 interface [polypeptide binding]; other site 351348008639 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 351348008640 active site 351348008641 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 351348008642 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 351348008643 G1 box; other site 351348008644 putative GEF interaction site [polypeptide binding]; other site 351348008645 GTP/Mg2+ binding site [chemical binding]; other site 351348008646 Switch I region; other site 351348008647 G2 box; other site 351348008648 G3 box; other site 351348008649 Switch II region; other site 351348008650 G4 box; other site 351348008651 G5 box; other site 351348008652 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 351348008653 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 351348008654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348008655 Coenzyme A binding pocket [chemical binding]; other site 351348008656 2-isopropylmalate synthase; Validated; Region: PRK00915 351348008657 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 351348008658 active site 351348008659 catalytic residues [active] 351348008660 metal binding site [ion binding]; metal-binding site 351348008661 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351348008662 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 351348008663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348008664 ATP-grasp domain; Region: ATP-grasp; pfam02222 351348008665 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 351348008666 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 351348008667 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 351348008668 trimer interface [polypeptide binding]; other site 351348008669 putative metal binding site [ion binding]; other site 351348008670 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 351348008671 putative active site [active] 351348008672 putative CoA binding site [chemical binding]; other site 351348008673 nudix motif; other site 351348008674 metal binding site [ion binding]; metal-binding site 351348008675 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_4; cd04511 351348008676 nudix motif; other site 351348008677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 351348008678 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 351348008679 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 351348008680 dimerization interface [polypeptide binding]; other site 351348008681 ATP binding site [chemical binding]; other site 351348008682 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 351348008683 dimerization interface [polypeptide binding]; other site 351348008684 ATP binding site [chemical binding]; other site 351348008685 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 351348008686 putative active site [active] 351348008687 catalytic triad [active] 351348008688 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 351348008689 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348008690 substrate binding pocket [chemical binding]; other site 351348008691 membrane-bound complex binding site; other site 351348008692 hinge residues; other site 351348008693 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 351348008694 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348008695 catalytic residue [active] 351348008696 recombination regulator RecX; Reviewed; Region: recX; PRK00117 351348008697 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 351348008698 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 351348008699 Late competence development protein ComFB; Region: ComFB; pfam10719 351348008700 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 351348008701 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 351348008702 dimer interface [polypeptide binding]; other site 351348008703 active site 351348008704 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 351348008705 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 351348008706 substrate binding site [chemical binding]; other site 351348008707 oxyanion hole (OAH) forming residues; other site 351348008708 trimer interface [polypeptide binding]; other site 351348008709 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351348008710 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351348008711 carboxy-terminal protease; Provisional; Region: PRK11186 351348008712 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 351348008713 protein binding site [polypeptide binding]; other site 351348008714 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 351348008715 Catalytic dyad [active] 351348008716 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 351348008717 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 351348008718 non-specific DNA binding site [nucleotide binding]; other site 351348008719 salt bridge; other site 351348008720 sequence-specific DNA binding site [nucleotide binding]; other site 351348008721 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 351348008722 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 351348008723 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 351348008724 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 351348008725 active site 351348008726 putative substrate binding pocket [chemical binding]; other site 351348008727 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 351348008728 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 351348008729 S-adenosylmethionine binding site [chemical binding]; other site 351348008730 phosphoglycolate phosphatase; Provisional; Region: PRK13222 351348008731 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 351348008732 motif II; other site 351348008733 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 351348008734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348008735 NAD(P) binding site [chemical binding]; other site 351348008736 active site 351348008737 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 351348008738 hypothetical protein; Validated; Region: PRK02101 351348008739 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 351348008740 Putative exonuclease, RdgC; Region: RdgC; pfam04381 351348008741 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 351348008742 CoA binding domain; Region: CoA_binding_2; pfam13380 351348008743 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 351348008744 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 351348008745 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351348008746 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351348008747 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 351348008748 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 351348008749 putative active site [active] 351348008750 Zn binding site [ion binding]; other site 351348008751 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351348008752 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348008753 ligand binding site [chemical binding]; other site 351348008754 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 351348008755 active site 351348008756 substrate binding pocket [chemical binding]; other site 351348008757 dimer interface [polypeptide binding]; other site 351348008758 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 351348008759 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 351348008760 dimer interface [polypeptide binding]; other site 351348008761 catalytic site [active] 351348008762 putative active site [active] 351348008763 putative substrate binding site [chemical binding]; other site 351348008764 short chain dehydrogenase; Provisional; Region: PRK07201 351348008765 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 351348008766 putative NAD(P) binding site [chemical binding]; other site 351348008767 active site 351348008768 putative substrate binding site [chemical binding]; other site 351348008769 classical (c) SDRs; Region: SDR_c; cd05233 351348008770 NAD(P) binding site [chemical binding]; other site 351348008771 active site 351348008772 transketolase; Region: PLN02790 351348008773 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 351348008774 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351348008775 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351348008776 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351348008777 Predicted permease; Region: DUF318; cl17795 351348008778 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348008779 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 351348008780 C-terminal domain interface [polypeptide binding]; other site 351348008781 GSH binding site (G-site) [chemical binding]; other site 351348008782 dimer interface [polypeptide binding]; other site 351348008783 oxidoreductase; Validated; Region: PRK05717 351348008784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348008785 NAD(P) binding site [chemical binding]; other site 351348008786 active site 351348008787 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 351348008788 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 351348008789 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 351348008790 PAS domain; Region: PAS_9; pfam13426 351348008791 putative active site [active] 351348008792 heme pocket [chemical binding]; other site 351348008793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348008794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348008795 metal binding site [ion binding]; metal-binding site 351348008796 active site 351348008797 I-site; other site 351348008798 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351348008799 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 351348008800 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 351348008801 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351348008802 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351348008803 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 351348008804 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 351348008805 dimerization interface [polypeptide binding]; other site 351348008806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348008807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348008808 dimer interface [polypeptide binding]; other site 351348008809 putative CheW interface [polypeptide binding]; other site 351348008810 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 351348008811 BolA-like protein; Region: BolA; cl00386 351348008812 DNA topoisomerase III; Provisional; Region: PRK07726 351348008813 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 351348008814 active site 351348008815 putative interdomain interaction site [polypeptide binding]; other site 351348008816 putative metal-binding site [ion binding]; other site 351348008817 putative nucleotide binding site [chemical binding]; other site 351348008818 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 351348008819 domain I; other site 351348008820 phosphate binding site [ion binding]; other site 351348008821 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; cl11986 351348008822 domain III; other site 351348008823 nucleotide binding site [chemical binding]; other site 351348008824 DNA binding groove [nucleotide binding] 351348008825 catalytic site [active] 351348008826 domain II; other site 351348008827 domain IV; other site 351348008828 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351348008829 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351348008830 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348008831 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 351348008832 active site 351348008833 phosphorylation site [posttranslational modification] 351348008834 intermolecular recognition site; other site 351348008835 dimerization interface [polypeptide binding]; other site 351348008836 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 351348008837 DNA binding site [nucleotide binding] 351348008838 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 351348008839 FecR protein; Region: FecR; pfam04773 351348008840 CHASE2 domain; Region: CHASE2; pfam05226 351348008841 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351348008842 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 351348008843 putative active site [active] 351348008844 heme pocket [chemical binding]; other site 351348008845 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 351348008846 ATP binding site [chemical binding]; other site 351348008847 Mg2+ binding site [ion binding]; other site 351348008848 G-X-G motif; other site 351348008849 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348008850 Interdomain contacts; other site 351348008851 Cytokine receptor motif; other site 351348008852 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 351348008853 RNA/DNA hybrid binding site [nucleotide binding]; other site 351348008854 active site 351348008855 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 351348008856 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 351348008857 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 351348008858 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 351348008859 active site 351348008860 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 351348008861 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 351348008862 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 351348008863 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 351348008864 trimer interface [polypeptide binding]; other site 351348008865 active site 351348008866 UDP-GlcNAc binding site [chemical binding]; other site 351348008867 lipid binding site [chemical binding]; lipid-binding site 351348008868 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 351348008869 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 351348008870 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348008871 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348008872 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348008873 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 351348008874 Surface antigen; Region: Bac_surface_Ag; pfam01103 351348008875 zinc metallopeptidase RseP; Provisional; Region: PRK10779 351348008876 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 351348008877 active site 351348008878 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 351348008879 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 351348008880 protein binding site [polypeptide binding]; other site 351348008881 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 351348008882 putative substrate binding region [chemical binding]; other site 351348008883 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 351348008884 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 351348008885 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 351348008886 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 351348008887 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 351348008888 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 351348008889 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 351348008890 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 351348008891 catalytic residue [active] 351348008892 putative FPP diphosphate binding site; other site 351348008893 putative FPP binding hydrophobic cleft; other site 351348008894 dimer interface [polypeptide binding]; other site 351348008895 putative IPP diphosphate binding site; other site 351348008896 ribosome recycling factor; Reviewed; Region: frr; PRK00083 351348008897 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 351348008898 hinge region; other site 351348008899 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 351348008900 putative nucleotide binding site [chemical binding]; other site 351348008901 uridine monophosphate binding site [chemical binding]; other site 351348008902 homohexameric interface [polypeptide binding]; other site 351348008903 elongation factor Ts; Provisional; Region: tsf; PRK09377 351348008904 UBA/TS-N domain; Region: UBA; pfam00627 351348008905 Elongation factor TS; Region: EF_TS; pfam00889 351348008906 Elongation factor TS; Region: EF_TS; pfam00889 351348008907 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 351348008908 rRNA interaction site [nucleotide binding]; other site 351348008909 S8 interaction site; other site 351348008910 putative laminin-1 binding site; other site 351348008911 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 351348008912 active site 351348008913 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 351348008914 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351348008915 metal binding triad; other site 351348008916 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351348008917 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348008918 Zn2+ binding site [ion binding]; other site 351348008919 Mg2+ binding site [ion binding]; other site 351348008920 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 351348008921 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 351348008922 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 351348008923 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 351348008924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348008925 homodimer interface [polypeptide binding]; other site 351348008926 catalytic residue [active] 351348008927 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 351348008928 ArsC family; Region: ArsC; pfam03960 351348008929 putative catalytic residues [active] 351348008930 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 351348008931 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 351348008932 putative trimer interface [polypeptide binding]; other site 351348008933 putative CoA binding site [chemical binding]; other site 351348008934 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 351348008935 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 351348008936 metal binding site [ion binding]; metal-binding site 351348008937 dimer interface [polypeptide binding]; other site 351348008938 SlyX; Region: SlyX; pfam04102 351348008939 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 351348008940 DNA-binding site [nucleotide binding]; DNA binding site 351348008941 RNA-binding motif; other site 351348008942 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 351348008943 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 351348008944 dimer interface [polypeptide binding]; other site 351348008945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351348008946 active site 351348008947 metal binding site [ion binding]; metal-binding site 351348008948 glutathione binding site [chemical binding]; other site 351348008949 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351348008950 RHS Repeat; Region: RHS_repeat; pfam05593 351348008951 RHS Repeat; Region: RHS_repeat; pfam05593 351348008952 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348008953 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348008954 RHS Repeat; Region: RHS_repeat; pfam05593 351348008955 RHS Repeat; Region: RHS_repeat; pfam05593 351348008956 RHS protein; Region: RHS; pfam03527 351348008957 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 351348008958 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 351348008959 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 351348008960 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 351348008961 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 351348008962 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 351348008963 active site 351348008964 homodimer interface [polypeptide binding]; other site 351348008965 catalytic site [active] 351348008966 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 351348008967 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 351348008968 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 351348008969 active site 351348008970 motif I; other site 351348008971 motif II; other site 351348008972 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 351348008973 Uncharacterized conserved protein [Function unknown]; Region: COG0397 351348008974 hypothetical protein; Validated; Region: PRK00029 351348008975 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351348008976 RHS Repeat; Region: RHS_repeat; pfam05593 351348008977 RHS Repeat; Region: RHS_repeat; pfam05593 351348008978 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348008979 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348008980 RHS Repeat; Region: RHS_repeat; cl11982 351348008981 RHS Repeat; Region: RHS_repeat; cl11982 351348008982 RHS Repeat; Region: RHS_repeat; pfam05593 351348008983 RHS Repeat; Region: RHS_repeat; pfam05593 351348008984 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 351348008985 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 351348008986 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 351348008987 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 351348008988 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 351348008989 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 351348008990 active site 351348008991 homodimer interface [polypeptide binding]; other site 351348008992 catalytic site [active] 351348008993 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 351348008994 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 351348008995 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 351348008996 active site 351348008997 motif I; other site 351348008998 motif II; other site 351348008999 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 351348009000 Uncharacterized conserved protein [Function unknown]; Region: COG0397 351348009001 hypothetical protein; Validated; Region: PRK00029 351348009002 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 351348009003 RHS Repeat; Region: RHS_repeat; pfam05593 351348009004 RHS Repeat; Region: RHS_repeat; pfam05593 351348009005 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348009006 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 351348009007 RHS Repeat; Region: RHS_repeat; cl11982 351348009008 RHS Repeat; Region: RHS_repeat; cl11982 351348009009 RHS Repeat; Region: RHS_repeat; pfam05593 351348009010 RHS Repeat; Region: RHS_repeat; pfam05593 351348009011 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 351348009012 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 351348009013 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 351348009014 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 351348009015 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 351348009016 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 351348009017 active site 351348009018 homodimer interface [polypeptide binding]; other site 351348009019 catalytic site [active] 351348009020 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 351348009021 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 351348009022 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 351348009023 active site 351348009024 motif I; other site 351348009025 motif II; other site 351348009026 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 351348009027 Uncharacterized conserved protein [Function unknown]; Region: COG0397 351348009028 hypothetical protein; Validated; Region: PRK00029 351348009029 muropeptide transporter; Reviewed; Region: ampG; PRK11902 351348009030 muropeptide transporter; Validated; Region: ampG; cl17669 351348009031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 351348009032 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 351348009033 Response regulator receiver domain; Region: Response_reg; pfam00072 351348009034 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 351348009035 active site 351348009036 phosphorylation site [posttranslational modification] 351348009037 intermolecular recognition site; other site 351348009038 dimerization interface [polypeptide binding]; other site 351348009039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348009040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348009041 metal binding site [ion binding]; metal-binding site 351348009042 active site 351348009043 I-site; other site 351348009044 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348009045 SurA N-terminal domain; Region: SurA_N; pfam09312 351348009046 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348009047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348009048 argininosuccinate synthase; Provisional; Region: PRK13820 351348009049 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 351348009050 ANP binding site [chemical binding]; other site 351348009051 Substrate Binding Site II [chemical binding]; other site 351348009052 Substrate Binding Site I [chemical binding]; other site 351348009053 flagellar protein FliS; Validated; Region: fliS; PRK05685 351348009054 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 351348009055 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 351348009056 FlaG protein; Region: FlaG; pfam03646 351348009057 flagellin; Provisional; Region: PRK12806 351348009058 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351348009059 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351348009060 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 351348009061 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351348009062 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 351348009063 active site 351348009064 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 351348009065 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 351348009066 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351348009067 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 351348009068 inhibitor-cofactor binding pocket; inhibition site 351348009069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348009070 catalytic residue [active] 351348009071 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 351348009072 flagellin; Provisional; Region: PRK12806 351348009073 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351348009074 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 351348009075 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351348009076 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 351348009077 TPR motif; other site 351348009078 binding surface 351348009079 TPR repeat; Region: TPR_11; pfam13414 351348009080 SWIM zinc finger; Region: SWIM; pfam04434 351348009081 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 351348009082 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 351348009083 ATP binding site [chemical binding]; other site 351348009084 putative Mg++ binding site [ion binding]; other site 351348009085 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 351348009086 nucleotide binding region [chemical binding]; other site 351348009087 ATP-binding site [chemical binding]; other site 351348009088 exonuclease I; Provisional; Region: sbcB; PRK11779 351348009089 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 351348009090 active site 351348009091 catalytic site [active] 351348009092 substrate binding site [chemical binding]; other site 351348009093 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 351348009094 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 351348009095 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 351348009096 Response regulator receiver domain; Region: Response_reg; pfam00072 351348009097 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 351348009098 active site 351348009099 phosphorylation site [posttranslational modification] 351348009100 intermolecular recognition site; other site 351348009101 dimerization interface [polypeptide binding]; other site 351348009102 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 351348009103 PAS fold; Region: PAS_4; pfam08448 351348009104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348009105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348009106 metal binding site [ion binding]; metal-binding site 351348009107 active site 351348009108 I-site; other site 351348009109 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 351348009110 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 351348009111 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 351348009112 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 351348009113 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 351348009114 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351348009115 Beta-Casp domain; Region: Beta-Casp; smart01027 351348009116 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 351348009117 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 351348009118 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 351348009119 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 351348009120 NAD(P) binding site [chemical binding]; other site 351348009121 homodimer interface [polypeptide binding]; other site 351348009122 substrate binding site [chemical binding]; other site 351348009123 active site 351348009124 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 351348009125 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351348009126 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 351348009127 putative NAD(P) binding site [chemical binding]; other site 351348009128 active site 351348009129 putative substrate binding site [chemical binding]; other site 351348009130 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 351348009131 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348009132 putative ADP-binding pocket [chemical binding]; other site 351348009133 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348009134 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 351348009135 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351348009136 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 351348009137 active site 351348009138 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 351348009139 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 351348009140 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 351348009141 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 351348009142 colanic acid exporter; Provisional; Region: PRK10459 351348009143 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 351348009144 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 351348009145 TrkA-C domain; Region: TrkA_C; pfam02080 351348009146 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351348009147 TrkA-C domain; Region: TrkA_C; pfam02080 351348009148 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 351348009149 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 351348009150 ligand-binding site [chemical binding]; other site 351348009151 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 351348009152 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 351348009153 CysD dimerization site [polypeptide binding]; other site 351348009154 G1 box; other site 351348009155 putative GEF interaction site [polypeptide binding]; other site 351348009156 GTP/Mg2+ binding site [chemical binding]; other site 351348009157 Switch I region; other site 351348009158 G2 box; other site 351348009159 G3 box; other site 351348009160 Switch II region; other site 351348009161 G4 box; other site 351348009162 G5 box; other site 351348009163 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 351348009164 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 351348009165 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 351348009166 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 351348009167 Active Sites [active] 351348009168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 351348009169 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351348009170 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 351348009171 active site 351348009172 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348009173 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 351348009174 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 351348009175 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 351348009176 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 351348009177 substrate binding site; other site 351348009178 tetramer interface; other site 351348009179 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 351348009180 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 351348009181 NADP binding site [chemical binding]; other site 351348009182 active site 351348009183 putative substrate binding site [chemical binding]; other site 351348009184 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 351348009185 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 351348009186 NAD binding site [chemical binding]; other site 351348009187 substrate binding site [chemical binding]; other site 351348009188 homodimer interface [polypeptide binding]; other site 351348009189 active site 351348009190 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 351348009191 active site 351348009192 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351348009193 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 351348009194 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 351348009195 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351348009196 Walker A/P-loop; other site 351348009197 ATP binding site [chemical binding]; other site 351348009198 Q-loop/lid; other site 351348009199 ABC transporter signature motif; other site 351348009200 Walker B; other site 351348009201 D-loop; other site 351348009202 H-loop/switch region; other site 351348009203 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 351348009204 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351348009205 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 351348009206 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 351348009207 active site 351348009208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 351348009209 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351348009210 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 351348009211 S-adenosylmethionine binding site [chemical binding]; other site 351348009212 type II secretion system protein D; Region: type_II_gspD; TIGR02517 351348009213 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 351348009214 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 351348009215 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351348009216 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 351348009217 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 351348009218 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351348009219 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348009220 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348009221 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348009222 Type II/IV secretion system protein; Region: T2SE; pfam00437 351348009223 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 351348009224 Walker A motif; other site 351348009225 ATP binding site [chemical binding]; other site 351348009226 Walker B motif; other site 351348009227 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348009228 Interdomain contacts; other site 351348009229 Cytokine receptor motif; other site 351348009230 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351348009231 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 351348009232 active site 351348009233 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 351348009234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351348009235 Beta-Casp domain; Region: Beta-Casp; smart01027 351348009236 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 351348009237 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 351348009238 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 351348009239 E-class dimer interface [polypeptide binding]; other site 351348009240 P-class dimer interface [polypeptide binding]; other site 351348009241 active site 351348009242 Cu2+ binding site [ion binding]; other site 351348009243 Zn2+ binding site [ion binding]; other site 351348009244 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 351348009245 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351348009246 active site 351348009247 NTP binding site [chemical binding]; other site 351348009248 metal binding triad [ion binding]; metal-binding site 351348009249 antibiotic binding site [chemical binding]; other site 351348009250 Cytochrome c; Region: Cytochrom_C; cl11414 351348009251 Cytochrome c; Region: Cytochrom_C; pfam00034 351348009252 Fic/DOC family; Region: Fic; pfam02661 351348009253 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348009254 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348009255 DNA binding residues [nucleotide binding] 351348009256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348009257 Integrase core domain; Region: rve; pfam00665 351348009258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348009259 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348009260 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348009261 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 351348009262 Walker A motif; other site 351348009263 ATP binding site [chemical binding]; other site 351348009264 Walker B motif; other site 351348009265 arginine finger; other site 351348009266 Uncharacterized conserved protein [Function unknown]; Region: COG4104 351348009267 CcdB protein; Region: CcdB; cl03380 351348009268 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 351348009269 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 351348009270 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 351348009271 HicB family; Region: HicB; pfam05534 351348009272 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 351348009273 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 351348009274 non-specific DNA binding site [nucleotide binding]; other site 351348009275 sequence-specific DNA binding site [nucleotide binding]; other site 351348009276 salt bridge; other site 351348009277 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 351348009278 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 351348009279 non-specific DNA binding site [nucleotide binding]; other site 351348009280 salt bridge; other site 351348009281 sequence-specific DNA binding site [nucleotide binding]; other site 351348009282 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 351348009283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 351348009284 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 351348009285 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 351348009286 non-specific DNA binding site [nucleotide binding]; other site 351348009287 salt bridge; other site 351348009288 sequence-specific DNA binding site [nucleotide binding]; other site 351348009289 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 351348009290 Pilin (bacterial filament); Region: Pilin; pfam00114 351348009291 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351348009292 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351348009293 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 351348009294 Walker A motif; other site 351348009295 ATP binding site [chemical binding]; other site 351348009296 Walker B motif; other site 351348009297 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351348009298 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348009299 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351348009300 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 351348009301 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 351348009302 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 351348009303 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 351348009304 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 351348009305 CoA-binding site [chemical binding]; other site 351348009306 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 351348009307 homodimer interaction site [polypeptide binding]; other site 351348009308 cofactor binding site; other site 351348009309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348009310 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 351348009311 dimer interface [polypeptide binding]; other site 351348009312 phosphorylation site [posttranslational modification] 351348009313 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 351348009314 ATP binding site [chemical binding]; other site 351348009315 Mg2+ binding site [ion binding]; other site 351348009316 G-X-G motif; other site 351348009317 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348009318 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 351348009319 active site 351348009320 phosphorylation site [posttranslational modification] 351348009321 intermolecular recognition site; other site 351348009322 dimerization interface [polypeptide binding]; other site 351348009323 Response regulator receiver domain; Region: Response_reg; pfam00072 351348009324 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 351348009325 active site 351348009326 phosphorylation site [posttranslational modification] 351348009327 intermolecular recognition site; other site 351348009328 dimerization interface [polypeptide binding]; other site 351348009329 Domain of unknown function (DUF329); Region: DUF329; pfam03884 351348009330 YfaZ precursor; Region: YfaZ; pfam07437 351348009331 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 351348009332 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348009333 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 351348009334 putative acyl-acceptor binding pocket; other site 351348009335 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 351348009336 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 351348009337 DNA binding residues [nucleotide binding] 351348009338 dimerization interface [polypeptide binding]; other site 351348009339 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 351348009340 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 351348009341 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 351348009342 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 351348009343 dimer interface [polypeptide binding]; other site 351348009344 active site 351348009345 Predicted ATPase [General function prediction only]; Region: COG1485 351348009346 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 351348009347 Uncharacterized conserved protein [Function unknown]; Region: COG0327 351348009348 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 351348009349 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 351348009350 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 351348009351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348009352 homodimer interface [polypeptide binding]; other site 351348009353 catalytic residue [active] 351348009354 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 351348009355 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 351348009356 NAD binding site [chemical binding]; other site 351348009357 dimerization interface [polypeptide binding]; other site 351348009358 product binding site; other site 351348009359 substrate binding site [chemical binding]; other site 351348009360 zinc binding site [ion binding]; other site 351348009361 catalytic residues [active] 351348009362 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 351348009363 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 351348009364 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 351348009365 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 351348009366 hinge; other site 351348009367 active site 351348009368 BolA-like protein; Region: BolA; pfam01722 351348009369 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 351348009370 anti sigma factor interaction site; other site 351348009371 regulatory phosphorylation site [posttranslational modification]; other site 351348009372 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 351348009373 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 351348009374 mce related protein; Region: MCE; pfam02470 351348009375 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 351348009376 Permease; Region: Permease; cl00510 351348009377 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 351348009378 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 351348009379 Walker A/P-loop; other site 351348009380 ATP binding site [chemical binding]; other site 351348009381 Q-loop/lid; other site 351348009382 ABC transporter signature motif; other site 351348009383 Walker B; other site 351348009384 D-loop; other site 351348009385 H-loop/switch region; other site 351348009386 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 351348009387 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 351348009388 putative active site [active] 351348009389 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 351348009390 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 351348009391 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 351348009392 active site 351348009393 motif I; other site 351348009394 motif II; other site 351348009395 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 351348009396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 351348009397 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 351348009398 OstA-like protein; Region: OstA; pfam03968 351348009399 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 351348009400 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 351348009401 Walker A/P-loop; other site 351348009402 ATP binding site [chemical binding]; other site 351348009403 Q-loop/lid; other site 351348009404 ABC transporter signature motif; other site 351348009405 Walker B; other site 351348009406 D-loop; other site 351348009407 H-loop/switch region; other site 351348009408 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 351348009409 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 351348009410 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 351348009411 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 351348009412 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 351348009413 30S subunit binding site; other site 351348009414 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 351348009415 active site 351348009416 phosphorylation site [posttranslational modification] 351348009417 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 351348009418 AAA domain; Region: AAA_33; pfam13671 351348009419 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 351348009420 dimerization domain swap beta strand [polypeptide binding]; other site 351348009421 regulatory protein interface [polypeptide binding]; other site 351348009422 active site 351348009423 regulatory phosphorylation site [posttranslational modification]; other site 351348009424 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 351348009425 MgtE intracellular N domain; Region: MgtE_N; smart00924 351348009426 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 351348009427 Divalent cation transporter; Region: MgtE; cl00786 351348009428 Protein of unknown function (DUF615); Region: DUF615; pfam04751 351348009429 nitrilase; Region: PLN02798 351348009430 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 351348009431 putative active site [active] 351348009432 catalytic triad [active] 351348009433 dimer interface [polypeptide binding]; other site 351348009434 Predicted membrane protein [Function unknown]; Region: COG3164 351348009435 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 351348009436 ribonuclease G; Provisional; Region: PRK11712 351348009437 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 351348009438 homodimer interface [polypeptide binding]; other site 351348009439 oligonucleotide binding site [chemical binding]; other site 351348009440 Domain of Unknown Function with PDB structure (DUF3863); Region: DUF3863; pfam12979 351348009441 Maf-like protein; Region: Maf; pfam02545 351348009442 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 351348009443 active site 351348009444 dimer interface [polypeptide binding]; other site 351348009445 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 351348009446 rod shape-determining protein MreC; Provisional; Region: PRK13922 351348009447 rod shape-determining protein MreC; Region: MreC; pfam04085 351348009448 rod shape-determining protein MreB; Provisional; Region: PRK13927 351348009449 MreB and similar proteins; Region: MreB_like; cd10225 351348009450 nucleotide binding site [chemical binding]; other site 351348009451 Mg binding site [ion binding]; other site 351348009452 putative protofilament interaction site [polypeptide binding]; other site 351348009453 RodZ interaction site [polypeptide binding]; other site 351348009454 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 351348009455 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 351348009456 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 351348009457 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 351348009458 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 351348009459 GatB domain; Region: GatB_Yqey; smart00845 351348009460 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 351348009461 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351348009462 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 351348009463 FeS/SAM binding site; other site 351348009464 PilZ domain; Region: PilZ; pfam07238 351348009465 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 351348009466 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 351348009467 Active Sites [active] 351348009468 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 351348009469 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 351348009470 CysD dimerization site [polypeptide binding]; other site 351348009471 G1 box; other site 351348009472 putative GEF interaction site [polypeptide binding]; other site 351348009473 GTP/Mg2+ binding site [chemical binding]; other site 351348009474 Switch I region; other site 351348009475 G2 box; other site 351348009476 G3 box; other site 351348009477 Switch II region; other site 351348009478 G4 box; other site 351348009479 G5 box; other site 351348009480 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 351348009481 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 351348009482 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351348009483 Nucleoid-associated protein [General function prediction only]; Region: COG3081 351348009484 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 351348009485 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 351348009486 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351348009487 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 351348009488 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 351348009489 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351348009490 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 351348009491 FeS/SAM binding site; other site 351348009492 TRAM domain; Region: TRAM; pfam01938 351348009493 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 351348009494 PhoH-like protein; Region: PhoH; pfam02562 351348009495 metal-binding heat shock protein; Provisional; Region: PRK00016 351348009496 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 351348009497 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 351348009498 Transporter associated domain; Region: CorC_HlyC; smart01091 351348009499 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 351348009500 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 351348009501 putative active site [active] 351348009502 catalytic triad [active] 351348009503 putative dimer interface [polypeptide binding]; other site 351348009504 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 351348009505 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 351348009506 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 351348009507 HIGH motif; other site 351348009508 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351348009509 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351348009510 active site 351348009511 KMSKS motif; other site 351348009512 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 351348009513 tRNA binding surface [nucleotide binding]; other site 351348009514 Lipopolysaccharide-assembly; Region: LptE; pfam04390 351348009515 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 351348009516 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 351348009517 Endonuclease I; Region: Endonuclease_1; cl01003 351348009518 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 351348009519 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 351348009520 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348009521 active site 351348009522 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 351348009523 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 351348009524 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 351348009525 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348009526 active site 351348009527 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 351348009528 SprA-related family; Region: SprA-related; pfam12118 351348009529 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 351348009530 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 351348009531 AAA domain; Region: AAA_26; pfam13500 351348009532 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 351348009533 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 351348009534 S-adenosylmethionine binding site [chemical binding]; other site 351348009535 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 351348009536 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 351348009537 substrate-cofactor binding pocket; other site 351348009538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348009539 catalytic residue [active] 351348009540 biotin synthase; Region: bioB; TIGR00433 351348009541 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 351348009542 FeS/SAM binding site; other site 351348009543 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 351348009544 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 351348009545 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348009546 active site 351348009547 hydroxyglutarate oxidase; Provisional; Region: PRK11728 351348009548 Predicted dehydrogenase [General function prediction only]; Region: COG0579 351348009549 serine/threonine protein kinase; Provisional; Region: PRK11768 351348009550 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 351348009551 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 351348009552 S-adenosylmethionine binding site [chemical binding]; other site 351348009553 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351348009554 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 351348009555 S-adenosylmethionine binding site [chemical binding]; other site 351348009556 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 351348009557 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 351348009558 GDP-binding site [chemical binding]; other site 351348009559 ACT binding site; other site 351348009560 IMP binding site; other site 351348009561 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 351348009562 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 351348009563 dimer interface [polypeptide binding]; other site 351348009564 motif 1; other site 351348009565 active site 351348009566 motif 2; other site 351348009567 motif 3; other site 351348009568 HflC protein; Region: hflC; TIGR01932 351348009569 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 351348009570 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 351348009571 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 351348009572 HflK protein; Region: hflK; TIGR01933 351348009573 GTPase HflX; Provisional; Region: PRK11058 351348009574 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 351348009575 HflX GTPase family; Region: HflX; cd01878 351348009576 G1 box; other site 351348009577 GTP/Mg2+ binding site [chemical binding]; other site 351348009578 Switch I region; other site 351348009579 G2 box; other site 351348009580 G3 box; other site 351348009581 Switch II region; other site 351348009582 G4 box; other site 351348009583 G5 box; other site 351348009584 bacterial Hfq-like; Region: Hfq; cd01716 351348009585 hexamer interface [polypeptide binding]; other site 351348009586 Sm1 motif; other site 351348009587 RNA binding site [nucleotide binding]; other site 351348009588 Sm2 motif; other site 351348009589 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 351348009590 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 351348009591 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 351348009592 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 351348009593 ATP binding site [chemical binding]; other site 351348009594 Mg2+ binding site [ion binding]; other site 351348009595 G-X-G motif; other site 351348009596 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 351348009597 ATP binding site [chemical binding]; other site 351348009598 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 351348009599 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 351348009600 AMIN domain; Region: AMIN; pfam11741 351348009601 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 351348009602 active site 351348009603 metal binding site [ion binding]; metal-binding site 351348009604 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 351348009605 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351348009606 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 351348009607 Uncharacterized conserved protein [Function unknown]; Region: COG0062 351348009608 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 351348009609 putative substrate binding site [chemical binding]; other site 351348009610 putative ATP binding site [chemical binding]; other site 351348009611 epoxyqueuosine reductase; Region: TIGR00276 351348009612 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 351348009613 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 351348009614 catalytic site [active] 351348009615 putative active site [active] 351348009616 putative substrate binding site [chemical binding]; other site 351348009617 dimer interface [polypeptide binding]; other site 351348009618 GTPase RsgA; Reviewed; Region: PRK12288 351348009619 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 351348009620 RNA binding site [nucleotide binding]; other site 351348009621 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 351348009622 GTPase/Zn-binding domain interface [polypeptide binding]; other site 351348009623 GTP/Mg2+ binding site [chemical binding]; other site 351348009624 G4 box; other site 351348009625 G5 box; other site 351348009626 G1 box; other site 351348009627 Switch I region; other site 351348009628 G2 box; other site 351348009629 G3 box; other site 351348009630 Switch II region; other site 351348009631 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 351348009632 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348009633 ligand binding site [chemical binding]; other site 351348009634 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 351348009635 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 351348009636 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 351348009637 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 351348009638 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 351348009639 motif 1; other site 351348009640 dimer interface [polypeptide binding]; other site 351348009641 active site 351348009642 motif 2; other site 351348009643 motif 3; other site 351348009644 elongation factor P; Validated; Region: PRK00529 351348009645 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 351348009646 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 351348009647 RNA binding site [nucleotide binding]; other site 351348009648 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 351348009649 RNA binding site [nucleotide binding]; other site 351348009650 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 351348009651 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351348009652 FeS/SAM binding site; other site 351348009653 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348009654 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; cl17736 351348009655 active site 351348009656 phosphorylation site [posttranslational modification] 351348009657 intermolecular recognition site; other site 351348009658 dimerization interface [polypeptide binding]; other site 351348009659 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 351348009660 putative active site [active] 351348009661 heme pocket [chemical binding]; other site 351348009662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348009663 metal binding site [ion binding]; metal-binding site 351348009664 active site 351348009665 I-site; other site 351348009666 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 351348009667 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 351348009668 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 351348009669 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 351348009670 phosphoserine phosphatase SerB; Region: serB; TIGR00338 351348009671 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 351348009672 motif II; other site 351348009673 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 351348009674 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 351348009675 CAP-like domain; other site 351348009676 active site 351348009677 primary dimer interface [polypeptide binding]; other site 351348009678 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351348009679 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 351348009680 dimerization interface [polypeptide binding]; other site 351348009681 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348009682 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348009683 dimer interface [polypeptide binding]; other site 351348009684 putative CheW interface [polypeptide binding]; other site 351348009685 hypothetical protein; Provisional; Region: PRK03757 351348009686 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 351348009687 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 351348009688 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 351348009689 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351348009690 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351348009691 TrkA-C domain; Region: TrkA_C; pfam02080 351348009692 TrkA-C domain; Region: TrkA_C; pfam02080 351348009693 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 351348009694 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 351348009695 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 351348009696 Mg2+ binding site [ion binding]; other site 351348009697 G-X-G motif; other site 351348009698 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 351348009699 anchoring element; other site 351348009700 dimer interface [polypeptide binding]; other site 351348009701 ATP binding site [chemical binding]; other site 351348009702 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 351348009703 active site 351348009704 metal binding site [ion binding]; metal-binding site 351348009705 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 351348009706 PrcB C-terminal; Region: PrcB_C; pfam14343 351348009707 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 351348009708 active site 351348009709 catalytic residues [active] 351348009710 DctM-like transporters; Region: DctM; pfam06808 351348009711 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 351348009712 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348009713 MULE transposase domain; Region: MULE; pfam10551 351348009714 Protein of unknown function (DUF229); Region: DUF229; pfam02995 351348009715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348009716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348009717 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 351348009718 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 351348009719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348009720 NAD(P) binding site [chemical binding]; other site 351348009721 active site 351348009722 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 351348009723 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 351348009724 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351348009725 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348009726 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348009727 active site 351348009728 enoyl-CoA hydratase; Provisional; Region: PRK05995 351348009729 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 351348009730 substrate binding site [chemical binding]; other site 351348009731 oxyanion hole (OAH) forming residues; other site 351348009732 trimer interface [polypeptide binding]; other site 351348009733 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 351348009734 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351348009735 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 351348009736 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351348009737 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 351348009738 carboxyltransferase (CT) interaction site; other site 351348009739 biotinylation site [posttranslational modification]; other site 351348009740 short chain dehydrogenase; Provisional; Region: PRK08278 351348009741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348009742 NAD(P) binding site [chemical binding]; other site 351348009743 active site 351348009744 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 351348009745 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351348009746 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 351348009747 acyl-activating enzyme (AAE) consensus motif; other site 351348009748 putative AMP binding site [chemical binding]; other site 351348009749 putative active site [active] 351348009750 putative CoA binding site [chemical binding]; other site 351348009751 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351348009752 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 351348009753 NAD(P) binding site [chemical binding]; other site 351348009754 Sensors of blue-light using FAD; Region: BLUF; pfam04940 351348009755 Predicted membrane protein [Function unknown]; Region: COG2860 351348009756 UPF0126 domain; Region: UPF0126; pfam03458 351348009757 UPF0126 domain; Region: UPF0126; pfam03458 351348009758 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 351348009759 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348009760 active site 351348009761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 351348009762 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 351348009763 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351348009764 ABC1 family; Region: ABC1; pfam03109 351348009765 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; cl17270 351348009766 active site 351348009767 ATP binding site [chemical binding]; other site 351348009768 NAD-dependent deacetylase; Provisional; Region: PRK00481 351348009769 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 351348009770 NAD+ binding site [chemical binding]; other site 351348009771 substrate binding site [chemical binding]; other site 351348009772 Zn binding site [ion binding]; other site 351348009773 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 351348009774 FAD binding domain; Region: FAD_binding_4; pfam01565 351348009775 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 351348009776 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 351348009777 ligand binding site [chemical binding]; other site 351348009778 NAD binding site [chemical binding]; other site 351348009779 tetramer interface [polypeptide binding]; other site 351348009780 catalytic site [active] 351348009781 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 351348009782 L-serine binding site [chemical binding]; other site 351348009783 ACT domain interface; other site 351348009784 putative outer membrane lipoprotein; Provisional; Region: PRK10510 351348009785 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348009786 ligand binding site [chemical binding]; other site 351348009787 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 351348009788 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348009789 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 351348009790 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 351348009791 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 351348009792 GIY-YIG motif/motif A; other site 351348009793 putative active site [active] 351348009794 putative metal binding site [ion binding]; other site 351348009795 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 351348009796 EamA-like transporter family; Region: EamA; pfam00892 351348009797 EamA-like transporter family; Region: EamA; pfam00892 351348009798 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 351348009799 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 351348009800 active site 351348009801 phosphorylation site [posttranslational modification] 351348009802 intermolecular recognition site; other site 351348009803 dimerization interface [polypeptide binding]; other site 351348009804 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 351348009805 Walker A motif; other site 351348009806 ATP binding site [chemical binding]; other site 351348009807 Walker B motif; other site 351348009808 arginine finger; other site 351348009809 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348009810 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348009811 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 351348009812 dimer interface [polypeptide binding]; other site 351348009813 phosphorylation site [posttranslational modification] 351348009814 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 351348009815 ATP binding site [chemical binding]; other site 351348009816 Mg2+ binding site [ion binding]; other site 351348009817 G-X-G motif; other site 351348009818 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 351348009819 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 351348009820 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 351348009821 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351348009822 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 351348009823 Imelysin; Region: Peptidase_M75; cl09159 351348009824 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 351348009825 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 351348009826 Imelysin; Region: Peptidase_M75; pfam09375 351348009827 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 351348009828 Predicted membrane protein [Function unknown]; Region: COG3671 351348009829 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348009830 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348009831 dimer interface [polypeptide binding]; other site 351348009832 putative CheW interface [polypeptide binding]; other site 351348009833 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 351348009834 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 351348009835 Fatty acid desaturase; Region: FA_desaturase; pfam00487 351348009836 Di-iron ligands [ion binding]; other site 351348009837 enoyl-CoA hydratase; Provisional; Region: PRK06563 351348009838 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 351348009839 substrate binding site [chemical binding]; other site 351348009840 oxyanion hole (OAH) forming residues; other site 351348009841 trimer interface [polypeptide binding]; other site 351348009842 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 351348009843 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 351348009844 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348009845 active site 351348009846 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 351348009847 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 351348009848 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 351348009849 conserved cys residue [active] 351348009850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348009851 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 351348009852 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 351348009853 active site 351348009854 FMN binding site [chemical binding]; other site 351348009855 2,4-decadienoyl-CoA binding site; other site 351348009856 catalytic residue [active] 351348009857 4Fe-4S cluster binding site [ion binding]; other site 351348009858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348009859 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 351348009860 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351348009861 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 351348009862 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 351348009863 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 351348009864 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 351348009865 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351348009866 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 351348009867 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 351348009868 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 351348009869 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 351348009870 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351348009871 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 351348009872 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 351348009873 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 351348009874 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 351348009875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351348009876 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 351348009877 Multisubunit Na+/H+ antiporter, MnhF subunit [Inorganic ion transport and metabolism]; Region: MnhF; COG2212 351348009878 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 351348009879 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 351348009880 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 351348009881 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 351348009882 dimer interface [polypeptide binding]; other site 351348009883 acyl-activating enzyme (AAE) consensus motif; other site 351348009884 putative active site [active] 351348009885 AMP binding site [chemical binding]; other site 351348009886 putative CoA binding site [chemical binding]; other site 351348009887 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 351348009888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348009889 translation initiation factor Sui1; Validated; Region: PRK06824 351348009890 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 351348009891 putative rRNA binding site [nucleotide binding]; other site 351348009892 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 351348009893 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 351348009894 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 351348009895 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 351348009896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348009897 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 351348009898 dimerization interface [polypeptide binding]; other site 351348009899 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 351348009900 dimer interface [polypeptide binding]; other site 351348009901 phosphorylation site [posttranslational modification] 351348009902 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 351348009903 ATP binding site [chemical binding]; other site 351348009904 Mg2+ binding site [ion binding]; other site 351348009905 G-X-G motif; other site 351348009906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348009907 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 351348009908 active site 351348009909 phosphorylation site [posttranslational modification] 351348009910 intermolecular recognition site; other site 351348009911 dimerization interface [polypeptide binding]; other site 351348009912 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 351348009913 DNA binding site [nucleotide binding] 351348009914 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 351348009915 Protein of unknown function, DUF482; Region: DUF482; pfam04339 351348009916 Dodecin; Region: Dodecin; pfam07311 351348009917 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 351348009918 Predicted membrane protein [Function unknown]; Region: COG4541 351348009919 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 351348009920 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 351348009921 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 351348009922 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 351348009923 NAD binding site [chemical binding]; other site 351348009924 Phe binding site; other site 351348009925 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 351348009926 Na2 binding site [ion binding]; other site 351348009927 putative substrate binding site 1 [chemical binding]; other site 351348009928 Na binding site 1 [ion binding]; other site 351348009929 putative substrate binding site 2 [chemical binding]; other site 351348009930 NAD-dependent deacetylase; Provisional; Region: PRK05333 351348009931 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 351348009932 NAD+ binding site [chemical binding]; other site 351348009933 substrate binding site [chemical binding]; other site 351348009934 Zn binding site [ion binding]; other site 351348009935 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 351348009936 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 351348009937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348009938 Walker A/P-loop; other site 351348009939 ATP binding site [chemical binding]; other site 351348009940 Q-loop/lid; other site 351348009941 ABC transporter signature motif; other site 351348009942 Walker B; other site 351348009943 D-loop; other site 351348009944 H-loop/switch region; other site 351348009945 ABC transporter; Region: ABC_tran_2; pfam12848 351348009946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351348009947 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 351348009948 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351348009949 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 351348009950 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 351348009951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348009952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348009953 LysR substrate binding domain; Region: LysR_substrate; pfam03466 351348009954 dimerization interface [polypeptide binding]; other site 351348009955 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 351348009956 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 351348009957 acyl-activating enzyme (AAE) consensus motif; other site 351348009958 putative AMP binding site [chemical binding]; other site 351348009959 putative active site [active] 351348009960 putative CoA binding site [chemical binding]; other site 351348009961 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 351348009962 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 351348009963 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 351348009964 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 351348009965 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 351348009966 S-adenosylmethionine binding site [chemical binding]; other site 351348009967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 351348009968 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348009969 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348009970 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351348009971 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 351348009972 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 351348009973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 351348009974 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 351348009975 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 351348009976 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 351348009977 putative active site [active] 351348009978 heme pocket [chemical binding]; other site 351348009979 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 351348009980 ATP binding site [chemical binding]; other site 351348009981 Mg2+ binding site [ion binding]; other site 351348009982 G-X-G motif; other site 351348009983 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 351348009984 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 351348009985 active site 351348009986 phosphorylation site [posttranslational modification] 351348009987 intermolecular recognition site; other site 351348009988 dimerization interface [polypeptide binding]; other site 351348009989 Transcriptional regulator; Region: CitT; pfam12431 351348009990 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 351348009991 EamA-like transporter family; Region: EamA; cl17759 351348009992 Phosphate-starvation-inducible E; Region: PsiE; cl01264 351348009993 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 351348009994 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 351348009995 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351348009996 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 351348009997 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348009998 catalytic residue [active] 351348009999 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 351348010000 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 351348010001 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 351348010002 RNA binding surface [nucleotide binding]; other site 351348010003 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 351348010004 active site 351348010005 uracil binding [chemical binding]; other site 351348010006 elongation factor P; Provisional; Region: PRK04542 351348010007 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 351348010008 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 351348010009 RNA binding site [nucleotide binding]; other site 351348010010 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 351348010011 RNA binding site [nucleotide binding]; other site 351348010012 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 351348010013 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348010014 metal binding site [ion binding]; metal-binding site 351348010015 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 351348010016 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348010017 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 351348010018 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 351348010019 substrate binding site [chemical binding]; other site 351348010020 oxyanion hole (OAH) forming residues; other site 351348010021 trimer interface [polypeptide binding]; other site 351348010022 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 351348010023 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 351348010024 PAS fold; Region: PAS_3; pfam08447 351348010025 putative active site [active] 351348010026 heme pocket [chemical binding]; other site 351348010027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348010028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348010029 metal binding site [ion binding]; metal-binding site 351348010030 active site 351348010031 I-site; other site 351348010032 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 351348010033 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348010034 substrate binding pocket [chemical binding]; other site 351348010035 membrane-bound complex binding site; other site 351348010036 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348010037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348010038 dimer interface [polypeptide binding]; other site 351348010039 putative CheW interface [polypeptide binding]; other site 351348010040 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 351348010041 NADH(P)-binding; Region: NAD_binding_10; pfam13460 351348010042 NAD binding site [chemical binding]; other site 351348010043 active site 351348010044 hypothetical protein; Provisional; Region: PRK09256 351348010045 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 351348010046 BCCT family transporter; Region: BCCT; pfam02028 351348010047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348010048 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 351348010049 Coenzyme A binding pocket [chemical binding]; other site 351348010050 Uncharacterized conserved protein [Function unknown]; Region: COG3791 351348010051 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351348010052 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 351348010053 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 351348010054 conserved cys residue [active] 351348010055 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 351348010056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348010057 Coenzyme A binding pocket [chemical binding]; other site 351348010058 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 351348010059 EamA-like transporter family; Region: EamA; pfam00892 351348010060 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351348010061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010063 Transglycosylase; Region: Transgly; cl17702 351348010064 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 351348010065 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 351348010066 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 351348010067 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 351348010068 putative substrate translocation pore; other site 351348010069 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 351348010070 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348010071 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348010072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348010073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348010074 metal binding site [ion binding]; metal-binding site 351348010075 active site 351348010076 I-site; other site 351348010077 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 351348010078 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 351348010079 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 351348010080 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 351348010081 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 351348010082 NADH(P)-binding; Region: NAD_binding_10; pfam13460 351348010083 NAD(P) binding site [chemical binding]; other site 351348010084 putative active site [active] 351348010085 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 351348010086 intracellular protease, PfpI family; Region: PfpI; TIGR01382 351348010087 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 351348010088 conserved cys residue [active] 351348010089 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348010090 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 351348010091 putative C-terminal domain interface [polypeptide binding]; other site 351348010092 putative GSH binding site (G-site) [chemical binding]; other site 351348010093 putative dimer interface [polypeptide binding]; other site 351348010094 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 351348010095 putative N-terminal domain interface [polypeptide binding]; other site 351348010096 putative dimer interface [polypeptide binding]; other site 351348010097 putative substrate binding pocket (H-site) [chemical binding]; other site 351348010098 Yqey-like protein; Region: YqeY; pfam09424 351348010099 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 351348010100 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 351348010101 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 351348010102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348010103 DNA-binding site [nucleotide binding]; DNA binding site 351348010104 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 351348010105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348010106 homodimer interface [polypeptide binding]; other site 351348010107 catalytic residue [active] 351348010108 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 351348010109 MgtC family; Region: MgtC; pfam02308 351348010110 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351348010111 Domain of unknown function DUF20; Region: UPF0118; pfam01594 351348010112 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 351348010113 DNA-binding site [nucleotide binding]; DNA binding site 351348010114 RNA-binding motif; other site 351348010115 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010116 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348010117 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 351348010118 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 351348010119 DNA binding site [nucleotide binding] 351348010120 active site 351348010121 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348010122 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 351348010123 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 351348010124 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 351348010125 ATP binding site [chemical binding]; other site 351348010126 putative Mg++ binding site [ion binding]; other site 351348010127 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 351348010128 nucleotide binding region [chemical binding]; other site 351348010129 ATP-binding site [chemical binding]; other site 351348010130 Double zinc ribbon; Region: DZR; pfam12773 351348010131 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 351348010132 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 351348010133 YebG protein; Region: YebG; pfam07130 351348010134 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351348010135 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 351348010136 Protein of unknown function (DUF938); Region: DUF938; pfam06080 351348010137 Helix-turn-helix domain; Region: HTH_37; pfam13744 351348010138 non-specific DNA binding site [nucleotide binding]; other site 351348010139 salt bridge; other site 351348010140 sequence-specific DNA binding site [nucleotide binding]; other site 351348010141 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 351348010142 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 351348010143 DNA-binding site [nucleotide binding]; DNA binding site 351348010144 RNA-binding motif; other site 351348010145 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 351348010146 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 351348010147 SEC-C motif; Region: SEC-C; pfam02810 351348010148 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 351348010149 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 351348010150 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 351348010151 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 351348010152 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 351348010153 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 351348010154 Protein of unknown function DUF86; Region: DUF86; pfam01934 351348010155 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 351348010156 active site 351348010157 NTP binding site [chemical binding]; other site 351348010158 metal binding triad [ion binding]; metal-binding site 351348010159 antibiotic binding site [chemical binding]; other site 351348010160 Predicted ATPase [General function prediction only]; Region: COG4637 351348010161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348010162 Walker A/P-loop; other site 351348010163 ATP binding site [chemical binding]; other site 351348010164 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 351348010165 thioredoxin 2; Provisional; Region: PRK10996 351348010166 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 351348010167 catalytic residues [active] 351348010168 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 351348010169 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 351348010170 Protein of unknown function, DUF393; Region: DUF393; pfam04134 351348010171 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 351348010172 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348010173 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348010174 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 351348010175 Walker A motif; other site 351348010176 ATP binding site [chemical binding]; other site 351348010177 Walker B motif; other site 351348010178 arginine finger; other site 351348010179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010180 Integrase core domain; Region: rve; pfam00665 351348010181 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010182 hypothetical protein; Provisional; Region: PRK11019 351348010183 Protein of unknown function DUF91; Region: DUF91; cl00709 351348010184 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 351348010185 Nuclease-related domain; Region: NERD; pfam08378 351348010186 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 351348010187 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 351348010188 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 351348010189 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 351348010190 UreF; Region: UreF; pfam01730 351348010191 urease accessory protein UreE; Provisional; Region: PRK14113 351348010192 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 351348010193 dimer interface [polypeptide binding]; other site 351348010194 catalytic residues [active] 351348010195 urease subunit alpha; Reviewed; Region: ureC; PRK13207 351348010196 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 351348010197 subunit interactions [polypeptide binding]; other site 351348010198 active site 351348010199 flap region; other site 351348010200 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 351348010201 gamma-beta subunit interface [polypeptide binding]; other site 351348010202 alpha-beta subunit interface [polypeptide binding]; other site 351348010203 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 351348010204 alpha-gamma subunit interface [polypeptide binding]; other site 351348010205 beta-gamma subunit interface [polypeptide binding]; other site 351348010206 UreD urease accessory protein; Region: UreD; pfam01774 351348010207 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 351348010208 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351348010209 Walker A/P-loop; other site 351348010210 ATP binding site [chemical binding]; other site 351348010211 Q-loop/lid; other site 351348010212 ABC transporter signature motif; other site 351348010213 Walker B; other site 351348010214 D-loop; other site 351348010215 H-loop/switch region; other site 351348010216 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 351348010217 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351348010218 Walker A/P-loop; other site 351348010219 ATP binding site [chemical binding]; other site 351348010220 Q-loop/lid; other site 351348010221 ABC transporter signature motif; other site 351348010222 Walker B; other site 351348010223 D-loop; other site 351348010224 H-loop/switch region; other site 351348010225 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 351348010226 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 351348010227 TM-ABC transporter signature motif; other site 351348010228 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351348010229 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 351348010230 TM-ABC transporter signature motif; other site 351348010231 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 351348010232 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 351348010233 putative ligand binding site [chemical binding]; other site 351348010234 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 351348010235 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 351348010236 EamA-like transporter family; Region: EamA; pfam00892 351348010237 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 351348010238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351348010239 dimer interface [polypeptide binding]; other site 351348010240 active site 351348010241 metal binding site [ion binding]; metal-binding site 351348010242 glutathione binding site [chemical binding]; other site 351348010243 Transcriptional regulators [Transcription]; Region: GntR; COG1802 351348010244 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348010245 DNA-binding site [nucleotide binding]; DNA binding site 351348010246 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351348010247 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 351348010248 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351348010249 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348010250 active site 351348010251 metal binding site [ion binding]; metal-binding site 351348010252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348010253 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 351348010254 putative ADP-binding pocket [chemical binding]; other site 351348010255 Protein of unknown function (DUF523); Region: DUF523; pfam04463 351348010256 Uncharacterized conserved protein [Function unknown]; Region: COG3272 351348010257 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 351348010258 Protein of unknown function, DUF481; Region: DUF481; pfam04338 351348010259 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 351348010260 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 351348010261 active site residue [active] 351348010262 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 351348010263 Thioredoxin; Region: Thioredoxin_4; pfam13462 351348010264 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 351348010265 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 351348010266 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 351348010267 FMN binding site [chemical binding]; other site 351348010268 substrate binding site [chemical binding]; other site 351348010269 putative catalytic residue [active] 351348010270 Protein of unknown function, DUF479; Region: DUF479; cl01203 351348010271 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1665 351348010272 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 351348010273 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 351348010274 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 351348010275 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 351348010276 HSP70 interaction site [polypeptide binding]; other site 351348010277 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351348010278 substrate binding site [polypeptide binding]; other site 351348010279 dimer interface [polypeptide binding]; other site 351348010280 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; cd00229 351348010281 active site 351348010282 catalytic triad [active] 351348010283 oxyanion hole [active] 351348010284 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 351348010285 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 351348010286 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 351348010287 putative substrate translocation pore; other site 351348010288 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 351348010289 hypothetical protein; Provisional; Region: PRK09040 351348010290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348010291 ligand binding site [chemical binding]; other site 351348010292 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 351348010293 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351348010294 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 351348010295 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351348010296 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 351348010297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 351348010298 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 351348010299 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 351348010300 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351348010301 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351348010302 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 351348010303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 351348010304 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 351348010305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 351348010306 Uncharacterized conserved protein [Function unknown]; Region: COG2308 351348010307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 351348010308 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 351348010309 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 351348010310 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 351348010311 intersubunit interface [polypeptide binding]; other site 351348010312 active site 351348010313 zinc binding site [ion binding]; other site 351348010314 Na+ binding site [ion binding]; other site 351348010315 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 351348010316 Phosphoglycerate kinase; Region: PGK; pfam00162 351348010317 substrate binding site [chemical binding]; other site 351348010318 hinge regions; other site 351348010319 ADP binding site [chemical binding]; other site 351348010320 catalytic site [active] 351348010321 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 351348010322 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351348010323 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351348010324 transketolase; Reviewed; Region: PRK12753 351348010325 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 351348010326 TPP-binding site [chemical binding]; other site 351348010327 dimer interface [polypeptide binding]; other site 351348010328 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 351348010329 PYR/PP interface [polypeptide binding]; other site 351348010330 dimer interface [polypeptide binding]; other site 351348010331 TPP binding site [chemical binding]; other site 351348010332 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351348010333 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 351348010334 dimerization interface [polypeptide binding]; other site 351348010335 putative DNA binding site [nucleotide binding]; other site 351348010336 putative Zn2+ binding site [ion binding]; other site 351348010337 Methyltransferase domain; Region: Methyltransf_23; pfam13489 351348010338 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 351348010339 S-adenosylmethionine binding site [chemical binding]; other site 351348010340 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 351348010341 S-adenosylmethionine synthetase; Validated; Region: PRK05250 351348010342 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 351348010343 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 351348010344 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 351348010345 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 351348010346 homotetramer interface [polypeptide binding]; other site 351348010347 ligand binding site [chemical binding]; other site 351348010348 catalytic site [active] 351348010349 NAD binding site [chemical binding]; other site 351348010350 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 351348010351 FAD binding site [chemical binding]; other site 351348010352 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348010353 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348010354 substrate binding pocket [chemical binding]; other site 351348010355 membrane-bound complex binding site; other site 351348010356 hinge residues; other site 351348010357 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 351348010358 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 351348010359 dimer interface [polypeptide binding]; other site 351348010360 conserved gate region; other site 351348010361 putative PBP binding loops; other site 351348010362 ABC-ATPase subunit interface; other site 351348010363 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 351348010364 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 351348010365 Walker A/P-loop; other site 351348010366 ATP binding site [chemical binding]; other site 351348010367 Q-loop/lid; other site 351348010368 ABC transporter signature motif; other site 351348010369 Walker B; other site 351348010370 D-loop; other site 351348010371 H-loop/switch region; other site 351348010372 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 351348010373 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 351348010374 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 351348010375 inhibitor-cofactor binding pocket; inhibition site 351348010376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348010377 catalytic residue [active] 351348010378 RNA methyltransferase, RsmE family; Region: TIGR00046 351348010379 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 351348010380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 351348010381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 351348010382 HDOD domain; Region: HDOD; pfam08668 351348010383 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 351348010384 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 351348010385 glycerate dehydrogenase; Provisional; Region: PRK06487 351348010386 putative ligand binding site [chemical binding]; other site 351348010387 putative NAD binding site [chemical binding]; other site 351348010388 catalytic site [active] 351348010389 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 351348010390 PrkA family serine protein kinase; Provisional; Region: PRK15455 351348010391 AAA ATPase domain; Region: AAA_16; pfam13191 351348010392 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 351348010393 hypothetical protein; Provisional; Region: PRK05325 351348010394 SpoVR family protein; Provisional; Region: PRK11767 351348010395 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 351348010396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348010397 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 351348010398 ATP binding site [chemical binding]; other site 351348010399 Mg2+ binding site [ion binding]; other site 351348010400 G-X-G motif; other site 351348010401 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348010402 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 351348010403 active site 351348010404 phosphorylation site [posttranslational modification] 351348010405 intermolecular recognition site; other site 351348010406 dimerization interface [polypeptide binding]; other site 351348010407 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 351348010408 DNA binding site [nucleotide binding] 351348010409 Predicted membrane protein [Function unknown]; Region: COG3212 351348010410 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 351348010411 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 351348010412 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 351348010413 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 351348010414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348010415 catalytic residue [active] 351348010416 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 351348010417 LrgA family; Region: LrgA; pfam03788 351348010418 bile acid transporter; Region: bass; TIGR00841 351348010419 Sodium Bile acid symporter family; Region: SBF; pfam01758 351348010420 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351348010421 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351348010422 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 351348010423 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 351348010424 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348010425 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 351348010426 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 351348010427 FAD binding pocket [chemical binding]; other site 351348010428 FAD binding motif [chemical binding]; other site 351348010429 phosphate binding motif [ion binding]; other site 351348010430 beta-alpha-beta structure motif; other site 351348010431 NAD binding pocket [chemical binding]; other site 351348010432 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 351348010433 catalytic loop [active] 351348010434 iron binding site [ion binding]; other site 351348010435 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 351348010436 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 351348010437 putative di-iron ligands [ion binding]; other site 351348010438 Predicted transcriptional regulator [Transcription]; Region: COG1959 351348010439 Transcriptional regulator; Region: Rrf2; cl17282 351348010440 Protein of unknown function (DUF454); Region: DUF454; pfam04304 351348010441 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 351348010442 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 351348010443 FeS/SAM binding site; other site 351348010444 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 351348010445 NosL; Region: NosL; pfam05573 351348010446 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 351348010447 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351348010448 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351348010449 Walker A/P-loop; other site 351348010450 ATP binding site [chemical binding]; other site 351348010451 Q-loop/lid; other site 351348010452 ABC transporter signature motif; other site 351348010453 Walker B; other site 351348010454 D-loop; other site 351348010455 H-loop/switch region; other site 351348010456 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 351348010457 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 351348010458 nitrous-oxide reductase; Validated; Region: PRK02888 351348010459 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 351348010460 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 351348010461 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 351348010462 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351348010463 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351348010464 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 351348010465 ligand binding site [chemical binding]; other site 351348010466 flexible hinge region; other site 351348010467 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 351348010468 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 351348010469 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351348010470 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 351348010471 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 351348010472 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 351348010473 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 351348010474 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 351348010475 [4Fe-4S] binding site [ion binding]; other site 351348010476 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 351348010477 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 351348010478 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 351348010479 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 351348010480 molybdopterin cofactor binding site; other site 351348010481 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 351348010482 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 351348010483 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 351348010484 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 351348010485 dimerization interface [polypeptide binding]; other site 351348010486 GAF domain; Region: GAF_3; pfam13492 351348010487 Histidine kinase; Region: HisKA_3; pfam07730 351348010488 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 351348010489 ATP binding site [chemical binding]; other site 351348010490 Mg2+ binding site [ion binding]; other site 351348010491 G-X-G motif; other site 351348010492 transcriptional regulator NarL; Provisional; Region: PRK10651 351348010493 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 351348010494 active site 351348010495 phosphorylation site [posttranslational modification] 351348010496 intermolecular recognition site; other site 351348010497 dimerization interface [polypeptide binding]; other site 351348010498 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 351348010499 DNA binding residues [nucleotide binding] 351348010500 dimerization interface [polypeptide binding]; other site 351348010501 SCP-2 sterol transfer family; Region: SCP2; cl01225 351348010502 Hemerythrin; Region: Hemerythrin; cd12107 351348010503 Fe binding site [ion binding]; other site 351348010504 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348010505 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348010506 metal binding site [ion binding]; metal-binding site 351348010507 active site 351348010508 I-site; other site 351348010509 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 351348010510 Protein of unknown function, DUF488; Region: DUF488; cl01246 351348010511 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 351348010512 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 351348010513 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 351348010514 FAD binding pocket [chemical binding]; other site 351348010515 FAD binding motif [chemical binding]; other site 351348010516 phosphate binding motif [ion binding]; other site 351348010517 beta-alpha-beta structure motif; other site 351348010518 NAD binding pocket [chemical binding]; other site 351348010519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348010520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348010521 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348010522 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348010523 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348010524 Protein export membrane protein; Region: SecD_SecF; cl14618 351348010525 putative protease; Provisional; Region: PRK15447 351348010526 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 351348010527 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 351348010528 Peptidase family U32; Region: Peptidase_U32; pfam01136 351348010529 Nitrate and nitrite sensing; Region: NIT; pfam08376 351348010530 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351348010531 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 351348010532 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348010533 dimer interface [polypeptide binding]; other site 351348010534 putative CheW interface [polypeptide binding]; other site 351348010535 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 351348010536 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 351348010537 FeS/SAM binding site; other site 351348010538 HemN C-terminal domain; Region: HemN_C; pfam06969 351348010539 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 351348010540 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 351348010541 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 351348010542 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 351348010543 motif II; other site 351348010544 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 351348010545 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 351348010546 motif II; other site 351348010547 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 351348010548 DNA photolyase; Region: DNA_photolyase; pfam00875 351348010549 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 351348010550 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 351348010551 Ligand Binding Site [chemical binding]; other site 351348010552 BCCT family transporter; Region: BCCT; pfam02028 351348010553 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 351348010554 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 351348010555 DNA binding residues [nucleotide binding] 351348010556 dimer interface [polypeptide binding]; other site 351348010557 putative metal binding site [ion binding]; other site 351348010558 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348010559 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 351348010560 active site 351348010561 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348010562 Interdomain contacts; other site 351348010563 Cytokine receptor motif; other site 351348010564 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 351348010565 Interdomain contacts; other site 351348010566 Cytokine receptor motif; other site 351348010567 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 351348010568 Membrane transport protein; Region: Mem_trans; cl09117 351348010569 Cytochrome c; Region: Cytochrom_C; pfam00034 351348010570 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 351348010571 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 351348010572 D-pathway; other site 351348010573 Low-spin heme binding site [chemical binding]; other site 351348010574 K-pathway; other site 351348010575 Binuclear center (active site) [active] 351348010576 Putative proton exit pathway; other site 351348010577 Putative water exit pathway; other site 351348010578 4Fe-4S binding domain; Region: Fer4_5; pfam12801 351348010579 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 351348010580 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 351348010581 metal ion-dependent adhesion site (MIDAS); other site 351348010582 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 351348010583 Subunit I/III interface [polypeptide binding]; other site 351348010584 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 351348010585 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 351348010586 Walker A motif; other site 351348010587 ATP binding site [chemical binding]; other site 351348010588 Walker B motif; other site 351348010589 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 351348010590 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 351348010591 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 351348010592 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351348010593 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351348010594 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351348010595 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 351348010596 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348010597 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 351348010598 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348010599 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348010600 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; cl17220 351348010601 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351348010602 Herpesvirus glycoprotein L; Region: Herpes_UL1; cl17637 351348010603 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 351348010604 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 351348010605 FeS/SAM binding site; other site 351348010606 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 351348010607 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 351348010608 active site 351348010609 SAM binding site [chemical binding]; other site 351348010610 homodimer interface [polypeptide binding]; other site 351348010611 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351348010612 Cytochrome c; Region: Cytochrom_C; pfam00034 351348010613 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 351348010614 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 351348010615 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351348010616 ligand binding site [chemical binding]; other site 351348010617 flexible hinge region; other site 351348010618 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 351348010619 Haemolysin-III related; Region: HlyIII; cl03831 351348010620 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 351348010621 NnrS protein; Region: NnrS; pfam05940 351348010622 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 351348010623 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 351348010624 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 351348010625 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351348010626 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 351348010627 putative substrate translocation pore; other site 351348010628 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 351348010629 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 351348010630 Ligand Binding Site [chemical binding]; other site 351348010631 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 351348010632 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 351348010633 putative substrate translocation pore; other site 351348010634 EVE domain; Region: EVE; cl00728 351348010635 Ion transport protein; Region: Ion_trans; pfam00520 351348010636 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 351348010637 NnrS protein; Region: NnrS; pfam05940 351348010638 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 351348010639 putative hydrophobic ligand binding site [chemical binding]; other site 351348010640 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 351348010641 active site 2 [active] 351348010642 active site 1 [active] 351348010643 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 351348010644 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 351348010645 dimer interface [polypeptide binding]; other site 351348010646 active site 351348010647 SurA N-terminal domain; Region: SurA_N; pfam09312 351348010648 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348010649 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010650 putative protease; Provisional; Region: PRK15452 351348010651 Peptidase family U32; Region: Peptidase_U32; pfam01136 351348010652 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 351348010653 putative ABC transporter; Region: ycf24; CHL00085 351348010654 FeS assembly ATPase SufC; Region: sufC; TIGR01978 351348010655 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 351348010656 Walker A/P-loop; other site 351348010657 ATP binding site [chemical binding]; other site 351348010658 Q-loop/lid; other site 351348010659 ABC transporter signature motif; other site 351348010660 Walker B; other site 351348010661 D-loop; other site 351348010662 H-loop/switch region; other site 351348010663 FeS assembly protein SufD; Region: sufD; TIGR01981 351348010664 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 351348010665 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 351348010666 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 351348010667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351348010668 catalytic residue [active] 351348010669 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 351348010670 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 351348010671 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 351348010672 LPP20 lipoprotein; Region: LPP20; pfam02169 351348010673 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 351348010674 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351348010675 active site 351348010676 NTP binding site [chemical binding]; other site 351348010677 metal binding triad [ion binding]; metal-binding site 351348010678 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351348010679 pteridine reductase; Provisional; Region: PRK09135 351348010680 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 351348010681 NADP binding site [chemical binding]; other site 351348010682 substrate binding pocket [chemical binding]; other site 351348010683 active site 351348010684 putative acyltransferase; Provisional; Region: PRK05790 351348010685 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 351348010686 dimer interface [polypeptide binding]; other site 351348010687 active site 351348010688 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 351348010689 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 351348010690 SecA binding site; other site 351348010691 Preprotein binding site; other site 351348010692 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 351348010693 active site residue [active] 351348010694 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 351348010695 phosphoglyceromutase; Provisional; Region: PRK05434 351348010696 AmiB activator; Provisional; Region: PRK11637 351348010697 Peptidase family M23; Region: Peptidase_M23; pfam01551 351348010698 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 351348010699 C-terminal peptidase (prc); Region: prc; TIGR00225 351348010700 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 351348010701 protein binding site [polypeptide binding]; other site 351348010702 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 351348010703 Catalytic dyad [active] 351348010704 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 351348010705 NodB motif; other site 351348010706 putative active site [active] 351348010707 putative catalytic site [active] 351348010708 Zn binding site [ion binding]; other site 351348010709 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 351348010710 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351348010711 substrate binding site [chemical binding]; other site 351348010712 glutamase interaction surface [polypeptide binding]; other site 351348010713 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 351348010714 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351348010715 catalytic residues [active] 351348010716 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 351348010717 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 351348010718 putative active site [active] 351348010719 oxyanion strand; other site 351348010720 catalytic triad [active] 351348010721 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 351348010722 putative active site pocket [active] 351348010723 4-fold oligomerization interface [polypeptide binding]; other site 351348010724 metal binding residues [ion binding]; metal-binding site 351348010725 3-fold/trimer interface [polypeptide binding]; other site 351348010726 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 351348010727 putative hydrophobic ligand binding site [chemical binding]; other site 351348010728 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 351348010729 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 351348010730 adenine DNA glycosylase; Provisional; Region: PRK10880 351348010731 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351348010732 minor groove reading motif; other site 351348010733 helix-hairpin-helix signature motif; other site 351348010734 substrate binding pocket [chemical binding]; other site 351348010735 active site 351348010736 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 351348010737 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 351348010738 DNA binding and oxoG recognition site [nucleotide binding] 351348010739 oxidative damage protection protein; Provisional; Region: PRK05408 351348010740 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 351348010741 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 351348010742 active site 351348010743 DNA binding site [nucleotide binding] 351348010744 Int/Topo IB signature motif; other site 351348010745 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348010746 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348010747 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 351348010748 Walker A motif; other site 351348010749 ATP binding site [chemical binding]; other site 351348010750 Walker B motif; other site 351348010751 arginine finger; other site 351348010752 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; cl17257 351348010753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010754 Integrase core domain; Region: rve; pfam00665 351348010755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010756 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 351348010757 HTH-like domain; Region: HTH_21; pfam13276 351348010758 Integrase core domain; Region: rve; pfam00665 351348010759 Integrase core domain; Region: rve_3; pfam13683 351348010760 Transposase; Region: HTH_Tnp_1; cl17663 351348010761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 351348010762 Integrase core domain; Region: rve; pfam00665 351348010763 Integrase core domain; Region: rve_3; cl15866 351348010764 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 351348010765 Prokaryotic E2 family A; Region: Prok-E2_A; pfam14457 351348010766 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 351348010767 ATP binding site [chemical binding]; other site 351348010768 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 351348010769 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348010770 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348010771 DNA binding residues [nucleotide binding] 351348010772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010773 Integrase core domain; Region: rve; pfam00665 351348010774 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348010775 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348010776 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348010777 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 351348010778 Walker A motif; other site 351348010779 ATP binding site [chemical binding]; other site 351348010780 Walker B motif; other site 351348010781 arginine finger; other site 351348010782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348010783 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 351348010784 LysR substrate binding domain; Region: LysR_substrate; pfam03466 351348010785 dimerization interface [polypeptide binding]; other site 351348010786 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 351348010787 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 351348010788 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 351348010789 Chromate transporter; Region: Chromate_transp; pfam02417 351348010790 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 351348010791 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348010792 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 351348010793 putative homodimer interface [polypeptide binding]; other site 351348010794 putative homotetramer interface [polypeptide binding]; other site 351348010795 putative metal binding site [ion binding]; other site 351348010796 putative homodimer-homodimer interface [polypeptide binding]; other site 351348010797 putative allosteric switch controlling residues; other site 351348010798 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 351348010799 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 351348010800 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 351348010801 sequence-specific DNA binding site [nucleotide binding]; other site 351348010802 salt bridge; other site 351348010803 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 351348010804 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 351348010805 Transposase, Mutator family; Region: Transposase_mut; pfam00872 351348010806 MULE transposase domain; Region: MULE; pfam10551 351348010807 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348010808 Domain of Unknown Function (DUF908); Region: DUF908; pfam06012 351348010809 integron integrase; Region: integrase_gron; TIGR02249 351348010810 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 351348010811 active site 351348010812 DNA binding site [nucleotide binding] 351348010813 Int/Topo IB signature motif; other site 351348010814 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 351348010815 active site 351348010816 catalytic residues [active] 351348010817 DNA binding site [nucleotide binding] 351348010818 Int/Topo IB signature motif; other site 351348010819 Heavy-metal-associated domain; Region: HMA; pfam00403 351348010820 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348010821 CCC1-related family of proteins; Region: CCC1_like; cl00278 351348010822 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 351348010823 Flavodoxin; Region: Flavodoxin_1; pfam00258 351348010824 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 351348010825 FAD binding pocket [chemical binding]; other site 351348010826 FAD binding motif [chemical binding]; other site 351348010827 catalytic residues [active] 351348010828 NAD binding pocket [chemical binding]; other site 351348010829 phosphate binding motif [ion binding]; other site 351348010830 beta-alpha-beta structure motif; other site 351348010831 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 351348010832 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 351348010833 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 351348010834 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 351348010835 FAD binding pocket [chemical binding]; other site 351348010836 FAD binding motif [chemical binding]; other site 351348010837 phosphate binding motif [ion binding]; other site 351348010838 beta-alpha-beta structure motif; other site 351348010839 NAD binding pocket [chemical binding]; other site 351348010840 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348010841 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 351348010842 active site 351348010843 phosphorylation site [posttranslational modification] 351348010844 intermolecular recognition site; other site 351348010845 dimerization interface [polypeptide binding]; other site 351348010846 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 351348010847 DNA binding site [nucleotide binding] 351348010848 sensor protein QseC; Provisional; Region: PRK10337 351348010849 HAMP domain; Region: HAMP; pfam00672 351348010850 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 351348010851 dimer interface [polypeptide binding]; other site 351348010852 phosphorylation site [posttranslational modification] 351348010853 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 351348010854 ATP binding site [chemical binding]; other site 351348010855 Mg2+ binding site [ion binding]; other site 351348010856 G-X-G motif; other site 351348010857 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 351348010858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348010859 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 351348010860 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 351348010861 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 351348010862 Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_OMO_CARDO; cd03548 351348010863 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 351348010864 iron-sulfur cluster [ion binding]; other site 351348010865 alpha subunit interaction site [polypeptide binding]; other site 351348010866 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 351348010867 alpha subunit interface [polypeptide binding]; other site 351348010868 active site 351348010869 substrate binding site [chemical binding]; other site 351348010870 Fe binding site [ion binding]; other site 351348010871 Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_OMO_CARDO; cd03548 351348010872 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 351348010873 iron-sulfur cluster [ion binding]; other site 351348010874 alpha subunit interaction site [polypeptide binding]; other site 351348010875 Homotrimeric ring hydroxylase; Region: Aromatic_hydrox; pfam11723 351348010876 hydrophobic ligand binding site; other site 351348010877 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 351348010878 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 351348010879 catalytic loop [active] 351348010880 iron binding site [ion binding]; other site 351348010881 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 351348010882 FAD binding pocket [chemical binding]; other site 351348010883 FAD binding motif [chemical binding]; other site 351348010884 phosphate binding motif [ion binding]; other site 351348010885 beta-alpha-beta structure motif; other site 351348010886 NAD binding pocket [chemical binding]; other site 351348010887 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 351348010888 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 351348010889 putative metal binding site [ion binding]; other site 351348010890 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 351348010891 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351348010892 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 351348010893 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 351348010894 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 351348010895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010896 Transcriptional activator [Transcription]; Region: ChrR; COG3806 351348010897 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348010898 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 351348010899 Helix-turn-helix domain; Region: HTH_18; pfam12833 351348010900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348010901 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 351348010902 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 351348010903 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 351348010904 putative active site [active] 351348010905 putative NTP binding site [chemical binding]; other site 351348010906 putative nucleic acid binding site [nucleotide binding]; other site 351348010907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348010908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348010909 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 351348010910 dimerization interface [polypeptide binding]; other site 351348010911 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 351348010912 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 351348010913 homodimer interface [polypeptide binding]; other site 351348010914 ligand binding site [chemical binding]; other site 351348010915 NAD binding site [chemical binding]; other site 351348010916 catalytic site [active] 351348010917 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348010918 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 351348010919 dimer interface [polypeptide binding]; other site 351348010920 conserved gate region; other site 351348010921 putative PBP binding loops; other site 351348010922 ABC-ATPase subunit interface; other site 351348010923 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 351348010924 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 351348010925 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 351348010926 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348010927 Walker A/P-loop; other site 351348010928 ATP binding site [chemical binding]; other site 351348010929 Q-loop/lid; other site 351348010930 ABC transporter signature motif; other site 351348010931 Walker B; other site 351348010932 D-loop; other site 351348010933 H-loop/switch region; other site 351348010934 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 351348010935 Predicted metal-binding protein [General function prediction only]; Region: COG3019 351348010936 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 351348010937 Cytochrome c; Region: Cytochrom_C; pfam00034 351348010938 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 351348010939 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 351348010940 pyruvate kinase; Provisional; Region: PRK14725 351348010941 active site 351348010942 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 351348010943 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 351348010944 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 351348010945 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348010946 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 351348010947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348010948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348010949 metal binding site [ion binding]; metal-binding site 351348010950 active site 351348010951 I-site; other site 351348010952 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 351348010953 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 351348010954 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 351348010955 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 351348010956 Walker A/P-loop; other site 351348010957 ATP binding site [chemical binding]; other site 351348010958 Q-loop/lid; other site 351348010959 ABC transporter signature motif; other site 351348010960 Walker B; other site 351348010961 D-loop; other site 351348010962 H-loop/switch region; other site 351348010963 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348010964 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 351348010965 dimer interface [polypeptide binding]; other site 351348010966 conserved gate region; other site 351348010967 ABC-ATPase subunit interface; other site 351348010968 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 351348010969 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 351348010970 dimer interface [polypeptide binding]; other site 351348010971 conserved gate region; other site 351348010972 ABC-ATPase subunit interface; other site 351348010973 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 351348010974 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 351348010975 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 351348010976 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 351348010977 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348010978 Nitrate and nitrite sensing; Region: NIT; pfam08376 351348010979 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 351348010980 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348010981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348010982 dimer interface [polypeptide binding]; other site 351348010983 putative CheW interface [polypeptide binding]; other site 351348010984 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 351348010985 PAS fold; Region: PAS_3; pfam08447 351348010986 putative active site [active] 351348010987 heme pocket [chemical binding]; other site 351348010988 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351348010989 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348010990 dimer interface [polypeptide binding]; other site 351348010991 putative CheW interface [polypeptide binding]; other site 351348010992 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 351348010993 Heavy-metal-associated domain; Region: HMA; pfam00403 351348010994 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348010995 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 351348010996 lipoprotein signal peptidase; Provisional; Region: PRK14787 351348010997 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351348010998 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 351348010999 Sodium Bile acid symporter family; Region: SBF; cl17470 351348011000 Thioredoxin; Region: Thioredoxin_4; pfam13462 351348011001 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 351348011002 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 351348011003 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 351348011004 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 351348011005 Cu(I) binding site [ion binding]; other site 351348011006 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 351348011007 Beta-lactamase; Region: Beta-lactamase; pfam00144 351348011008 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 351348011009 putative active site [active] 351348011010 catalytic site [active] 351348011011 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 351348011012 PLD-like domain; Region: PLDc_2; pfam13091 351348011013 putative active site [active] 351348011014 catalytic site [active] 351348011015 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 351348011016 dimerization interface [polypeptide binding]; other site 351348011017 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348011018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348011019 dimer interface [polypeptide binding]; other site 351348011020 putative CheW interface [polypeptide binding]; other site 351348011021 Predicted flavoprotein [General function prediction only]; Region: COG0431 351348011022 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351348011023 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 351348011024 putative hydrolase; Provisional; Region: PRK11460 351348011025 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351348011026 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 351348011027 P-loop; other site 351348011028 Magnesium ion binding site [ion binding]; other site 351348011029 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 351348011030 Magnesium ion binding site [ion binding]; other site 351348011031 LysE type translocator; Region: LysE; cl00565 351348011032 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 351348011033 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 351348011034 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 351348011035 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 351348011036 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 351348011037 intersubunit interface [polypeptide binding]; other site 351348011038 putative outer membrane receptor; Provisional; Region: PRK13513 351348011039 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 351348011040 N-terminal plug; other site 351348011041 ligand-binding site [chemical binding]; other site 351348011042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348011043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348011044 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 351348011045 dimerization interface [polypeptide binding]; other site 351348011046 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 351348011047 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 351348011048 siderophore binding site; other site 351348011049 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; cl00462 351348011050 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 351348011051 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 351348011052 ABC-ATPase subunit interface; other site 351348011053 dimer interface [polypeptide binding]; other site 351348011054 putative PBP binding regions; other site 351348011055 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; cl00462 351348011056 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 351348011057 ABC-ATPase subunit interface; other site 351348011058 dimer interface [polypeptide binding]; other site 351348011059 putative PBP binding regions; other site 351348011060 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 351348011061 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 351348011062 Walker A/P-loop; other site 351348011063 ATP binding site [chemical binding]; other site 351348011064 Q-loop/lid; other site 351348011065 ABC transporter signature motif; other site 351348011066 Walker B; other site 351348011067 D-loop; other site 351348011068 H-loop/switch region; other site 351348011069 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 351348011070 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 351348011071 putative substrate translocation pore; other site 351348011072 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348011073 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 351348011074 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 351348011075 Cysteine-rich domain; Region: CCG; pfam02754 351348011076 Cysteine-rich domain; Region: CCG; pfam02754 351348011077 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 351348011078 FAD binding domain; Region: FAD_binding_4; pfam01565 351348011079 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 351348011080 FAD binding domain; Region: FAD_binding_4; pfam01565 351348011081 Domain of unknown function (DUF336); Region: DUF336; pfam03928 351348011082 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 351348011083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351348011084 DNA-binding site [nucleotide binding]; DNA binding site 351348011085 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 351348011086 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 351348011087 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 351348011088 Walker A/P-loop; other site 351348011089 ATP binding site [chemical binding]; other site 351348011090 Q-loop/lid; other site 351348011091 ABC transporter signature motif; other site 351348011092 Walker B; other site 351348011093 D-loop; other site 351348011094 H-loop/switch region; other site 351348011095 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348011096 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348011097 substrate binding pocket [chemical binding]; other site 351348011098 membrane-bound complex binding site; other site 351348011099 hinge residues; other site 351348011100 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 351348011101 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 351348011102 dimer interface [polypeptide binding]; other site 351348011103 conserved gate region; other site 351348011104 putative PBP binding loops; other site 351348011105 ABC-ATPase subunit interface; other site 351348011106 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 351348011107 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 351348011108 dimer interface [polypeptide binding]; other site 351348011109 conserved gate region; other site 351348011110 putative PBP binding loops; other site 351348011111 ABC-ATPase subunit interface; other site 351348011112 succinylglutamate desuccinylase; Provisional; Region: PRK05324 351348011113 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 351348011114 active site 351348011115 Zn binding site [ion binding]; other site 351348011116 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348011117 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348011118 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348011119 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348011120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348011121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011122 WHG domain; Region: WHG; pfam13305 351348011123 succinylarginine dihydrolase; Provisional; Region: PRK13281 351348011124 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 351348011125 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 351348011126 NAD(P) binding site [chemical binding]; other site 351348011127 catalytic residues [active] 351348011128 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 351348011129 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 351348011130 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 351348011131 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 351348011132 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 351348011133 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 351348011134 inhibitor-cofactor binding pocket; inhibition site 351348011135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348011136 catalytic residue [active] 351348011137 Homeodomain-like domain; Region: HTH_23; pfam13384 351348011138 Winged helix-turn helix; Region: HTH_29; pfam13551 351348011139 Homeodomain-like domain; Region: HTH_32; pfam13565 351348011140 DDE superfamily endonuclease; Region: DDE_3; pfam13358 351348011141 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 351348011142 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 351348011143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348011144 FAD binding site [chemical binding]; other site 351348011145 substrate binding pocket [chemical binding]; other site 351348011146 catalytic base [active] 351348011147 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351348011148 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 351348011149 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 351348011150 E3 interaction surface; other site 351348011151 lipoyl attachment site [posttranslational modification]; other site 351348011152 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 351348011153 E3 interaction surface; other site 351348011154 lipoyl attachment site [posttranslational modification]; other site 351348011155 e3 binding domain; Region: E3_binding; pfam02817 351348011156 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351348011157 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 351348011158 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 351348011159 dimer interface [polypeptide binding]; other site 351348011160 TPP-binding site [chemical binding]; other site 351348011161 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 351348011162 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; cl15377 351348011163 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 351348011164 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 351348011165 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 351348011166 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 351348011167 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 351348011168 Walker A motif; other site 351348011169 ATP binding site [chemical binding]; other site 351348011170 Walker B motif; other site 351348011171 arginine finger; other site 351348011172 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351348011173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351348011174 MarR family; Region: MarR; pfam01047 351348011175 MarR family; Region: MarR_2; cl17246 351348011176 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 351348011177 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 351348011178 TPR motif; other site 351348011179 TPR repeat; Region: TPR_11; pfam13414 351348011180 binding surface 351348011181 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 351348011182 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 351348011183 dimerization interface [polypeptide binding]; other site 351348011184 ligand binding site [chemical binding]; other site 351348011185 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351348011186 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 351348011187 TM-ABC transporter signature motif; other site 351348011188 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 351348011189 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 351348011190 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 351348011191 TM-ABC transporter signature motif; other site 351348011192 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 351348011193 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351348011194 Walker A/P-loop; other site 351348011195 ATP binding site [chemical binding]; other site 351348011196 Q-loop/lid; other site 351348011197 ABC transporter signature motif; other site 351348011198 Walker B; other site 351348011199 D-loop; other site 351348011200 H-loop/switch region; other site 351348011201 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 351348011202 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351348011203 Walker A/P-loop; other site 351348011204 ATP binding site [chemical binding]; other site 351348011205 Q-loop/lid; other site 351348011206 ABC transporter signature motif; other site 351348011207 Walker B; other site 351348011208 D-loop; other site 351348011209 H-loop/switch region; other site 351348011210 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 351348011211 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 351348011212 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351348011213 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351348011214 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 351348011215 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 351348011216 RNase E interface [polypeptide binding]; other site 351348011217 trimer interface [polypeptide binding]; other site 351348011218 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 351348011219 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 351348011220 RNase E interface [polypeptide binding]; other site 351348011221 trimer interface [polypeptide binding]; other site 351348011222 active site 351348011223 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 351348011224 putative nucleic acid binding region [nucleotide binding]; other site 351348011225 G-X-X-G motif; other site 351348011226 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 351348011227 RNA binding site [nucleotide binding]; other site 351348011228 domain interface; other site 351348011229 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 351348011230 16S/18S rRNA binding site [nucleotide binding]; other site 351348011231 S13e-L30e interaction site [polypeptide binding]; other site 351348011232 25S rRNA binding site [nucleotide binding]; other site 351348011233 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 351348011234 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 351348011235 RNA binding site [nucleotide binding]; other site 351348011236 active site 351348011237 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 351348011238 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 351348011239 translation initiation factor IF-2; Region: IF-2; TIGR00487 351348011240 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 351348011241 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 351348011242 G1 box; other site 351348011243 putative GEF interaction site [polypeptide binding]; other site 351348011244 GTP/Mg2+ binding site [chemical binding]; other site 351348011245 Switch I region; other site 351348011246 G2 box; other site 351348011247 G3 box; other site 351348011248 Switch II region; other site 351348011249 G4 box; other site 351348011250 G5 box; other site 351348011251 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 351348011252 Translation-initiation factor 2; Region: IF-2; pfam11987 351348011253 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 351348011254 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 351348011255 NusA N-terminal domain; Region: NusA_N; pfam08529 351348011256 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 351348011257 RNA binding site [nucleotide binding]; other site 351348011258 homodimer interface [polypeptide binding]; other site 351348011259 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 351348011260 G-X-X-G motif; other site 351348011261 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 351348011262 G-X-X-G motif; other site 351348011263 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 351348011264 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 351348011265 ribosome maturation protein RimP; Reviewed; Region: PRK00092 351348011266 Sm and related proteins; Region: Sm_like; cl00259 351348011267 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 351348011268 putative oligomer interface [polypeptide binding]; other site 351348011269 putative RNA binding site [nucleotide binding]; other site 351348011270 Preprotein translocase SecG subunit; Region: SecG; pfam03840 351348011271 triosephosphate isomerase; Provisional; Region: PRK14567 351348011272 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 351348011273 substrate binding site [chemical binding]; other site 351348011274 dimer interface [polypeptide binding]; other site 351348011275 catalytic triad [active] 351348011276 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 351348011277 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 351348011278 active site 351348011279 substrate binding site [chemical binding]; other site 351348011280 metal binding site [ion binding]; metal-binding site 351348011281 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 351348011282 dihydropteroate synthase; Region: DHPS; TIGR01496 351348011283 substrate binding pocket [chemical binding]; other site 351348011284 dimer interface [polypeptide binding]; other site 351348011285 inhibitor binding site; inhibition site 351348011286 FtsH Extracellular; Region: FtsH_ext; pfam06480 351348011287 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351348011288 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 351348011289 Walker A motif; other site 351348011290 ATP binding site [chemical binding]; other site 351348011291 Walker B motif; other site 351348011292 arginine finger; other site 351348011293 Peptidase family M41; Region: Peptidase_M41; pfam01434 351348011294 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 351348011295 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 351348011296 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 351348011297 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351348011298 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 351348011299 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351348011300 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 351348011301 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 351348011302 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351348011303 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351348011304 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 351348011305 IMP binding site; other site 351348011306 dimer interface [polypeptide binding]; other site 351348011307 interdomain contacts; other site 351348011308 partial ornithine binding site; other site 351348011309 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 351348011310 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 351348011311 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 351348011312 catalytic site [active] 351348011313 subunit interface [polypeptide binding]; other site 351348011314 dihydrodipicolinate reductase; Provisional; Region: PRK00048 351348011315 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 351348011316 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 351348011317 chaperone protein DnaJ; Provisional; Region: PRK10767 351348011318 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 351348011319 HSP70 interaction site [polypeptide binding]; other site 351348011320 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 351348011321 substrate binding site [polypeptide binding]; other site 351348011322 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 351348011323 Zn binding sites [ion binding]; other site 351348011324 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351348011325 dimer interface [polypeptide binding]; other site 351348011326 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 351348011327 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 351348011328 nucleotide binding site [chemical binding]; other site 351348011329 NEF interaction site [polypeptide binding]; other site 351348011330 SBD interface [polypeptide binding]; other site 351348011331 GrpE; Region: GrpE; pfam01025 351348011332 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 351348011333 dimer interface [polypeptide binding]; other site 351348011334 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 351348011335 recombination and repair protein; Provisional; Region: PRK10869 351348011336 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 351348011337 Walker A/P-loop; other site 351348011338 ATP binding site [chemical binding]; other site 351348011339 Q-loop/lid; other site 351348011340 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 351348011341 ABC transporter signature motif; other site 351348011342 Walker B; other site 351348011343 D-loop; other site 351348011344 H-loop/switch region; other site 351348011345 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351348011346 metal binding site 2 [ion binding]; metal-binding site 351348011347 putative DNA binding helix; other site 351348011348 metal binding site 1 [ion binding]; metal-binding site 351348011349 dimer interface [polypeptide binding]; other site 351348011350 structural Zn2+ binding site [ion binding]; other site 351348011351 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 351348011352 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 351348011353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 351348011354 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 351348011355 putative coenzyme Q binding site [chemical binding]; other site 351348011356 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 351348011357 Na2 binding site [ion binding]; other site 351348011358 putative substrate binding site 1 [chemical binding]; other site 351348011359 Na binding site 1 [ion binding]; other site 351348011360 putative substrate binding site 2 [chemical binding]; other site 351348011361 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 351348011362 SmpB-tmRNA interface; other site 351348011363 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351348011364 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351348011365 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 351348011366 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 351348011367 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 351348011368 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 351348011369 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 351348011370 active site 351348011371 Int/Topo IB signature motif; other site 351348011372 HsdM N-terminal domain; Region: HsdM_N; pfam12161 351348011373 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 351348011374 Methyltransferase domain; Region: Methyltransf_26; pfam13659 351348011375 Fic/DOC family; Region: Fic; pfam02661 351348011376 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 351348011377 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 351348011378 Uncharacterized conserved protein [Function unknown]; Region: COG4127 351348011379 Restriction endonuclease; Region: Mrr_cat; pfam04471 351348011380 PIN domain; Region: PIN_3; pfam13470 351348011381 DNA binding domain, excisionase family; Region: excise; TIGR01764 351348011382 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 351348011383 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 351348011384 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 351348011385 ATP binding site [chemical binding]; other site 351348011386 putative Mg++ binding site [ion binding]; other site 351348011387 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 351348011388 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351348011389 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 351348011390 protein binding site [polypeptide binding]; other site 351348011391 Peptidase family M48; Region: Peptidase_M48; cl12018 351348011392 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 351348011393 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 351348011394 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 351348011395 putative active site [active] 351348011396 heme pocket [chemical binding]; other site 351348011397 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 351348011398 PAS domain; Region: PAS_9; pfam13426 351348011399 putative active site [active] 351348011400 heme pocket [chemical binding]; other site 351348011401 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348011402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348011403 metal binding site [ion binding]; metal-binding site 351348011404 active site 351348011405 I-site; other site 351348011406 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 351348011407 FtsH Extracellular; Region: FtsH_ext; pfam06480 351348011408 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351348011409 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 351348011410 Walker A motif; other site 351348011411 ATP binding site [chemical binding]; other site 351348011412 Walker B motif; other site 351348011413 arginine finger; other site 351348011414 Peptidase family M41; Region: Peptidase_M41; pfam01434 351348011415 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 351348011416 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 351348011417 putative active site [active] 351348011418 catalytic site [active] 351348011419 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 351348011420 putative active site [active] 351348011421 catalytic site [active] 351348011422 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 351348011423 Clp amino terminal domain; Region: Clp_N; pfam02861 351348011424 Clp amino terminal domain; Region: Clp_N; pfam02861 351348011425 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 351348011426 Walker A motif; other site 351348011427 ATP binding site [chemical binding]; other site 351348011428 Walker B motif; other site 351348011429 arginine finger; other site 351348011430 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 351348011431 Walker A motif; other site 351348011432 ATP binding site [chemical binding]; other site 351348011433 Walker B motif; other site 351348011434 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351348011435 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351348011436 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 351348011437 putative dimer interface [polypeptide binding]; other site 351348011438 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 351348011439 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 351348011440 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348011441 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 351348011442 active site 351348011443 phosphorylation site [posttranslational modification] 351348011444 intermolecular recognition site; other site 351348011445 dimerization interface [polypeptide binding]; other site 351348011446 acetolactate synthase; Reviewed; Region: PRK08322 351348011447 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351348011448 PYR/PP interface [polypeptide binding]; other site 351348011449 dimer interface [polypeptide binding]; other site 351348011450 TPP binding site [chemical binding]; other site 351348011451 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351348011452 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 351348011453 TPP-binding site [chemical binding]; other site 351348011454 dimer interface [polypeptide binding]; other site 351348011455 malate:quinone oxidoreductase; Validated; Region: PRK05257 351348011456 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 351348011457 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 351348011458 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 351348011459 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 351348011460 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351348011461 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348011462 putative acyl-acceptor binding pocket; other site 351348011463 methionine sulfoxide reductase B; Provisional; Region: PRK00222 351348011464 SelR domain; Region: SelR; pfam01641 351348011465 methionine sulfoxide reductase A; Provisional; Region: PRK14054 351348011466 phosphodiesterase YaeI; Provisional; Region: PRK11340 351348011467 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 351348011468 putative active site [active] 351348011469 putative metal binding site [ion binding]; other site 351348011470 Putative integral membrane protein DUF46; Region: DUF46; cl17511 351348011471 fumarate hydratase; Reviewed; Region: fumC; PRK00485 351348011472 Class II fumarases; Region: Fumarase_classII; cd01362 351348011473 active site 351348011474 tetramer interface [polypeptide binding]; other site 351348011475 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 351348011476 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 351348011477 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 351348011478 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 351348011479 NADP binding site [chemical binding]; other site 351348011480 dimer interface [polypeptide binding]; other site 351348011481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348011482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011483 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 351348011484 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351348011485 NAD(P) binding site [chemical binding]; other site 351348011486 catalytic residues [active] 351348011487 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351348011488 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351348011489 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 351348011490 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351348011491 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 351348011492 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 351348011493 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 351348011494 S-adenosylmethionine binding site [chemical binding]; other site 351348011495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 351348011496 SCP-2 sterol transfer family; Region: SCP2; pfam02036 351348011497 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 351348011498 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 351348011499 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 351348011500 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 351348011501 metal binding site [ion binding]; metal-binding site 351348011502 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 351348011503 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 351348011504 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 351348011505 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 351348011506 RNA methyltransferase, RsmE family; Region: TIGR00046 351348011507 Protein of unknown function (DUF808); Region: DUF808; pfam05661 351348011508 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 351348011509 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 351348011510 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 351348011511 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 351348011512 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 351348011513 proline aminopeptidase P II; Provisional; Region: PRK10879 351348011514 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 351348011515 active site 351348011516 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 351348011517 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 351348011518 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 351348011519 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351348011520 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351348011521 Walker A/P-loop; other site 351348011522 ATP binding site [chemical binding]; other site 351348011523 Q-loop/lid; other site 351348011524 ABC transporter signature motif; other site 351348011525 Walker B; other site 351348011526 D-loop; other site 351348011527 H-loop/switch region; other site 351348011528 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351348011529 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351348011530 FtsX-like permease family; Region: FtsX; pfam02687 351348011531 TIGR02449 family protein; Region: TIGR02449 351348011532 Cell division protein ZapA; Region: ZapA; pfam05164 351348011533 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 351348011534 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 351348011535 threonine dehydratase; Reviewed; Region: PRK09224 351348011536 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 351348011537 tetramer interface [polypeptide binding]; other site 351348011538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348011539 catalytic residue [active] 351348011540 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 351348011541 putative Ile/Val binding site [chemical binding]; other site 351348011542 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 351348011543 putative Ile/Val binding site [chemical binding]; other site 351348011544 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 351348011545 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351348011546 active site 351348011547 dimer interface [polypeptide binding]; other site 351348011548 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351348011549 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348011550 active site 351348011551 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 351348011552 dimer interface [polypeptide binding]; other site 351348011553 substrate binding site [chemical binding]; other site 351348011554 metal binding sites [ion binding]; metal-binding site 351348011555 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 351348011556 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 351348011557 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 351348011558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348011559 metal binding site [ion binding]; metal-binding site 351348011560 active site 351348011561 I-site; other site 351348011562 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 351348011563 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 351348011564 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 351348011565 active site 351348011566 phosphorylation site [posttranslational modification] 351348011567 intermolecular recognition site; other site 351348011568 dimerization interface [polypeptide binding]; other site 351348011569 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 351348011570 active site 351348011571 phosphorylation site [posttranslational modification] 351348011572 intermolecular recognition site; other site 351348011573 dimerization interface [polypeptide binding]; other site 351348011574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348011575 metal binding site [ion binding]; metal-binding site 351348011576 active site 351348011577 I-site; other site 351348011578 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 351348011579 Dehydroquinase class II; Region: DHquinase_II; pfam01220 351348011580 trimer interface [polypeptide binding]; other site 351348011581 active site 351348011582 dimer interface [polypeptide binding]; other site 351348011583 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 351348011584 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 351348011585 carboxyltransferase (CT) interaction site; other site 351348011586 biotinylation site [posttranslational modification]; other site 351348011587 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 351348011588 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351348011589 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 351348011590 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 351348011591 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 351348011592 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 351348011593 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 351348011594 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 351348011595 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 351348011596 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 351348011597 FMN binding site [chemical binding]; other site 351348011598 active site 351348011599 catalytic residues [active] 351348011600 substrate binding site [chemical binding]; other site 351348011601 BTB/POZ domain; Region: BTB; cl02518 351348011602 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 351348011603 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 351348011604 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 351348011605 purine monophosphate binding site [chemical binding]; other site 351348011606 dimer interface [polypeptide binding]; other site 351348011607 putative catalytic residues [active] 351348011608 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 351348011609 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 351348011610 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 351348011611 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 351348011612 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 351348011613 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348011614 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351348011615 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 351348011616 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 351348011617 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 351348011618 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 351348011619 TrkA-N domain; Region: TrkA_N; pfam02254 351348011620 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 351348011621 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 351348011622 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351348011623 Protein export membrane protein; Region: SecD_SecF; cl14618 351348011624 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348011625 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 351348011626 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348011627 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 351348011628 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011629 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 351348011630 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 351348011631 transmembrane helices; other site 351348011632 TrkA-C domain; Region: TrkA_C; pfam02080 351348011633 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 351348011634 TrkA-C domain; Region: TrkA_C; pfam02080 351348011635 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 351348011636 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 351348011637 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 351348011638 Walker A motif; other site 351348011639 ATP binding site [chemical binding]; other site 351348011640 Walker B motif; other site 351348011641 arginine finger; other site 351348011642 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 351348011643 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 351348011644 putative active site [active] 351348011645 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 351348011646 tetramer interface [polypeptide binding]; other site 351348011647 active site 351348011648 Mg2+/Mn2+ binding site [ion binding]; other site 351348011649 isocitrate lyase; Region: PLN02892 351348011650 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 351348011651 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 351348011652 FOG: CBS domain [General function prediction only]; Region: COG0517 351348011653 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_17; cd04630 351348011654 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 351348011655 putative transporter; Provisional; Region: PRK11660 351348011656 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 351348011657 Sulfate transporter family; Region: Sulfate_transp; pfam00916 351348011658 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 351348011659 Protein of unknown function, DUF399; Region: DUF399; pfam04187 351348011660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 351348011661 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 351348011662 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 351348011663 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 351348011664 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 351348011665 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 351348011666 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 351348011667 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 351348011668 DctM-like transporters; Region: DctM; pfam06808 351348011669 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 351348011670 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 351348011671 S-adenosylmethionine binding site [chemical binding]; other site 351348011672 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 351348011673 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351348011674 Gram-negative porin; Region: Porin_4; pfam13609 351348011675 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 351348011676 Uncharacterized conserved protein [Function unknown]; Region: COG3391 351348011677 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 351348011678 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 351348011679 dimerization interface [polypeptide binding]; other site 351348011680 DPS ferroxidase diiron center [ion binding]; other site 351348011681 ion pore; other site 351348011682 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 351348011683 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 351348011684 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348011685 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351348011686 LysE type translocator; Region: LysE; cl00565 351348011687 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 351348011688 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 351348011689 phage assembly protein; Region: IV; PHA00019 351348011690 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 351348011691 DnaJ chaperone protein; Provisional; Region: PTZ00100 351348011692 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 351348011693 HSP70 interaction site [polypeptide binding]; other site 351348011694 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351348011695 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351348011696 Bacterial transcriptional regulator; Region: IclR; pfam01614 351348011697 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 351348011698 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348011699 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348011700 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 351348011701 Protein export membrane protein; Region: SecD_SecF; cl14618 351348011702 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348011703 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348011704 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 351348011705 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348011706 multidrug efflux protein; Reviewed; Region: PRK09579 351348011707 Protein export membrane protein; Region: SecD_SecF; cl14618 351348011708 Helix-turn-helix domain; Region: HTH_18; pfam12833 351348011709 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 351348011710 aspartate aminotransferase; Provisional; Region: PRK05764 351348011711 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 351348011712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348011713 homodimer interface [polypeptide binding]; other site 351348011714 catalytic residue [active] 351348011715 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351348011716 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 351348011717 active site 351348011718 dimerization interface [polypeptide binding]; other site 351348011719 division inhibitor protein; Provisional; Region: slmA; PRK09480 351348011720 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011721 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 351348011722 ThiS interaction site; other site 351348011723 putative active site [active] 351348011724 tetramer interface [polypeptide binding]; other site 351348011725 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 351348011726 thiS-thiF/thiG interaction site; other site 351348011727 Protein of unknown function (DUF423); Region: DUF423; pfam04241 351348011728 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 351348011729 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 351348011730 active site 351348011731 metal binding site [ion binding]; metal-binding site 351348011732 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 351348011733 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 351348011734 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 351348011735 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 351348011736 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 351348011737 SurA N-terminal domain; Region: SurA_N; pfam09312 351348011738 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351348011739 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351348011740 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 351348011741 Organic solvent tolerance protein; Region: OstA_C; pfam04453 351348011742 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 351348011743 Phosphotransferase enzyme family; Region: APH; pfam01636 351348011744 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 351348011745 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 351348011746 Substrate binding site; other site 351348011747 metal-binding site 351348011748 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 351348011749 putative metal binding site [ion binding]; other site 351348011750 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 351348011751 HSP70 interaction site [polypeptide binding]; other site 351348011752 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 351348011753 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 351348011754 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 351348011755 substrate binding site [chemical binding]; other site 351348011756 hexamer interface [polypeptide binding]; other site 351348011757 metal binding site [ion binding]; metal-binding site 351348011758 phosphoglycolate phosphatase; Provisional; Region: PRK13222 351348011759 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 351348011760 motif II; other site 351348011761 anthranilate synthase component I; Provisional; Region: PRK13565 351348011762 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 351348011763 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 351348011764 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 351348011765 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 351348011766 glutamine binding [chemical binding]; other site 351348011767 catalytic triad [active] 351348011768 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 351348011769 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 351348011770 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 351348011771 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 351348011772 active site 351348011773 ribulose/triose binding site [chemical binding]; other site 351348011774 phosphate binding site [ion binding]; other site 351348011775 substrate (anthranilate) binding pocket [chemical binding]; other site 351348011776 product (indole) binding pocket [chemical binding]; other site 351348011777 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 351348011778 putative efflux protein, MATE family; Region: matE; TIGR00797 351348011779 IucA / IucC family; Region: IucA_IucC; pfam04183 351348011780 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 351348011781 IucA / IucC family; Region: IucA_IucC; pfam04183 351348011782 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 351348011783 acyl-CoA synthetase; Validated; Region: PRK08308 351348011784 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351348011785 acyl-activating enzyme (AAE) consensus motif; other site 351348011786 AMP binding site [chemical binding]; other site 351348011787 active site 351348011788 CoA binding site [chemical binding]; other site 351348011789 acyl carrier protein; Provisional; Region: PRK07639 351348011790 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351348011791 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 351348011792 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 351348011793 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 351348011794 Walker A/P-loop; other site 351348011795 ATP binding site [chemical binding]; other site 351348011796 Q-loop/lid; other site 351348011797 ABC transporter signature motif; other site 351348011798 Walker B; other site 351348011799 D-loop; other site 351348011800 H-loop/switch region; other site 351348011801 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 351348011802 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 351348011803 ABC-ATPase subunit interface; other site 351348011804 dimer interface [polypeptide binding]; other site 351348011805 putative PBP binding regions; other site 351348011806 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 351348011807 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 351348011808 intersubunit interface [polypeptide binding]; other site 351348011809 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 351348011810 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 351348011811 N-terminal plug; other site 351348011812 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348011813 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 351348011814 dimerization interface [polypeptide binding]; other site 351348011815 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 351348011816 dimer interface [polypeptide binding]; other site 351348011817 phosphorylation site [posttranslational modification] 351348011818 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 351348011819 ATP binding site [chemical binding]; other site 351348011820 Mg2+ binding site [ion binding]; other site 351348011821 G-X-G motif; other site 351348011822 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348011823 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 351348011824 active site 351348011825 phosphorylation site [posttranslational modification] 351348011826 intermolecular recognition site; other site 351348011827 dimerization interface [polypeptide binding]; other site 351348011828 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 351348011829 DNA binding site [nucleotide binding] 351348011830 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 351348011831 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348011832 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 351348011833 putative C-terminal domain interface [polypeptide binding]; other site 351348011834 putative GSH binding site (G-site) [chemical binding]; other site 351348011835 putative dimer interface [polypeptide binding]; other site 351348011836 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 351348011837 N-terminal domain interface [polypeptide binding]; other site 351348011838 dimer interface [polypeptide binding]; other site 351348011839 substrate binding pocket (H-site) [chemical binding]; other site 351348011840 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351348011841 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 351348011842 putative active site [active] 351348011843 Zn binding site [ion binding]; other site 351348011844 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348011845 substrate binding pocket [chemical binding]; other site 351348011846 membrane-bound complex binding site; other site 351348011847 hinge residues; other site 351348011848 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 351348011849 Predicted membrane protein [Function unknown]; Region: COG3650 351348011850 META domain; Region: META; pfam03724 351348011851 META domain; Region: META; pfam03724 351348011852 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 351348011853 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 351348011854 C-terminal domain interface [polypeptide binding]; other site 351348011855 GSH binding site (G-site) [chemical binding]; other site 351348011856 dimer interface [polypeptide binding]; other site 351348011857 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 351348011858 N-terminal domain interface [polypeptide binding]; other site 351348011859 dimer interface [polypeptide binding]; other site 351348011860 substrate binding pocket (H-site) [chemical binding]; other site 351348011861 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 351348011862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348011863 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 351348011864 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351348011865 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 351348011866 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 351348011867 putative PBP binding loops; other site 351348011868 dimer interface [polypeptide binding]; other site 351348011869 ABC-ATPase subunit interface; other site 351348011870 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 351348011871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348011872 Walker A/P-loop; other site 351348011873 ATP binding site [chemical binding]; other site 351348011874 Q-loop/lid; other site 351348011875 ABC transporter signature motif; other site 351348011876 Walker B; other site 351348011877 D-loop; other site 351348011878 H-loop/switch region; other site 351348011879 TOBE domain; Region: TOBE; pfam03459 351348011880 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351348011881 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351348011882 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 351348011883 metal ion-dependent adhesion site (MIDAS); other site 351348011884 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 351348011885 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 351348011886 ligand binding site [chemical binding]; other site 351348011887 flexible hinge region; other site 351348011888 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 351348011889 putative switch regulator; other site 351348011890 non-specific DNA interactions [nucleotide binding]; other site 351348011891 DNA binding site [nucleotide binding] 351348011892 sequence specific DNA binding site [nucleotide binding]; other site 351348011893 putative cAMP binding site [chemical binding]; other site 351348011894 OsmC-like protein; Region: OsmC; cl00767 351348011895 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 351348011896 Pirin-related protein [General function prediction only]; Region: COG1741 351348011897 Pirin; Region: Pirin; pfam02678 351348011898 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 351348011899 phosphoribulokinase; Provisional; Region: PRK15453 351348011900 active site 351348011901 PilZ domain; Region: PilZ; pfam07238 351348011902 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 351348011903 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348011904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348011905 metal binding site [ion binding]; metal-binding site 351348011906 active site 351348011907 I-site; other site 351348011908 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 351348011909 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 351348011910 N-acetylglutamate synthase; Validated; Region: PRK05279 351348011911 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 351348011912 putative feedback inhibition sensing region; other site 351348011913 putative nucleotide binding site [chemical binding]; other site 351348011914 putative substrate binding site [chemical binding]; other site 351348011915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351348011916 Coenzyme A binding pocket [chemical binding]; other site 351348011917 acetylornithine deacetylase; Provisional; Region: PRK05111 351348011918 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 351348011919 metal binding site [ion binding]; metal-binding site 351348011920 putative dimer interface [polypeptide binding]; other site 351348011921 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 351348011922 feedback inhibition sensing region; other site 351348011923 homohexameric interface [polypeptide binding]; other site 351348011924 nucleotide binding site [chemical binding]; other site 351348011925 N-acetyl-L-glutamate binding site [chemical binding]; other site 351348011926 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 351348011927 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 351348011928 active site 351348011929 substrate binding site [chemical binding]; other site 351348011930 metal binding site [ion binding]; metal-binding site 351348011931 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 351348011932 trimer interface [polypeptide binding]; other site 351348011933 active site 351348011934 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 351348011935 Flavoprotein; Region: Flavoprotein; pfam02441 351348011936 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 351348011937 hypothetical protein; Reviewed; Region: PRK00024 351348011938 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 351348011939 MPN+ (JAMM) motif; other site 351348011940 Zinc-binding site [ion binding]; other site 351348011941 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 351348011942 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 351348011943 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 351348011944 putative catalytic site [active] 351348011945 putative metal binding site [ion binding]; other site 351348011946 putative phosphate binding site [ion binding]; other site 351348011947 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 351348011948 catalytic residues [active] 351348011949 hinge region; other site 351348011950 alpha helical domain; other site 351348011951 Cytochrome c553 [Energy production and conversion]; Region: COG2863 351348011952 Cytochrome c; Region: Cytochrom_C; cl11414 351348011953 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 351348011954 G1 box; other site 351348011955 GTP/Mg2+ binding site [chemical binding]; other site 351348011956 Switch I region; other site 351348011957 G2 box; other site 351348011958 G3 box; other site 351348011959 Switch II region; other site 351348011960 G4 box; other site 351348011961 G5 box; other site 351348011962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348011963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011964 Bacterial transcriptional repressor; Region: TetR; pfam13972 351348011965 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 351348011966 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 351348011967 NAD(P) binding site [chemical binding]; other site 351348011968 catalytic residues [active] 351348011969 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 351348011970 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 351348011971 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 351348011972 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 351348011973 active site 351348011974 (T/H)XGH motif; other site 351348011975 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 351348011976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 351348011977 polyphosphate kinase; Provisional; Region: PRK05443 351348011978 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 351348011979 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 351348011980 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 351348011981 putative active site [active] 351348011982 catalytic site [active] 351348011983 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 351348011984 putative domain interface [polypeptide binding]; other site 351348011985 putative active site [active] 351348011986 catalytic site [active] 351348011987 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 351348011988 dimer interface [polypeptide binding]; other site 351348011989 allosteric magnesium binding site [ion binding]; other site 351348011990 active site 351348011991 aspartate-rich active site metal binding site; other site 351348011992 Schiff base residues; other site 351348011993 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 351348011994 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348011995 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348011996 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 351348011997 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348011998 active site 351348011999 Protein of unknown function (DUF503); Region: DUF503; pfam04456 351348012000 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 351348012001 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351348012002 catalytic residue [active] 351348012003 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 351348012004 Phosphate transporter family; Region: PHO4; pfam01384 351348012005 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012006 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012007 metal binding site [ion binding]; metal-binding site 351348012008 active site 351348012009 I-site; other site 351348012010 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 351348012011 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348012012 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348012013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012014 metal binding site [ion binding]; metal-binding site 351348012015 active site 351348012016 I-site; other site 351348012017 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 351348012018 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 351348012019 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 351348012020 active site 351348012021 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 351348012022 catalytic triad [active] 351348012023 dimer interface [polypeptide binding]; other site 351348012024 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 351348012025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348012026 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 351348012027 Rubredoxin [Energy production and conversion]; Region: COG1773 351348012028 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 351348012029 iron binding site [ion binding]; other site 351348012030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348012031 active site 351348012032 Chorismate lyase; Region: Chor_lyase; cl01230 351348012033 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 351348012034 UbiA prenyltransferase family; Region: UbiA; pfam01040 351348012035 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 351348012036 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 351348012037 active site 351348012038 phosphorylation site [posttranslational modification] 351348012039 intermolecular recognition site; other site 351348012040 dimerization interface [polypeptide binding]; other site 351348012041 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 351348012042 DNA binding site [nucleotide binding] 351348012043 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 351348012044 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351348012045 PAS domain; Region: PAS; smart00091 351348012046 putative active site [active] 351348012047 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 351348012048 dimer interface [polypeptide binding]; other site 351348012049 phosphorylation site [posttranslational modification] 351348012050 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 351348012051 ATP binding site [chemical binding]; other site 351348012052 Mg2+ binding site [ion binding]; other site 351348012053 G-X-G motif; other site 351348012054 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 351348012055 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012056 active site 351348012057 phosphorylation site [posttranslational modification] 351348012058 intermolecular recognition site; other site 351348012059 dimerization interface [polypeptide binding]; other site 351348012060 Transglycosylase SLT domain; Region: SLT_2; pfam13406 351348012061 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 351348012062 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351348012063 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351348012064 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 351348012065 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 351348012066 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 351348012067 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 351348012068 RNA binding surface [nucleotide binding]; other site 351348012069 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 351348012070 active site 351348012071 uracil binding [chemical binding]; other site 351348012072 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 351348012073 active site 351348012074 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 351348012075 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 351348012076 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348012077 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348012078 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 351348012079 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 351348012080 PAAR motif; Region: PAAR_motif; pfam05488 351348012081 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 351348012082 XFP N-terminal domain; Region: XFP_N; pfam09364 351348012083 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 351348012084 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 351348012085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351348012086 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 351348012087 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 351348012088 motif II; other site 351348012089 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 351348012090 PhoD-like phosphatase; Region: PhoD; pfam09423 351348012091 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 351348012092 putative active site [active] 351348012093 putative metal binding site [ion binding]; other site 351348012094 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 351348012095 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 351348012096 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 351348012097 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351348012098 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 351348012099 DNA-binding site [nucleotide binding]; DNA binding site 351348012100 RNA-binding motif; other site 351348012101 chromosome condensation membrane protein; Provisional; Region: PRK14196 351348012102 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 351348012103 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348012104 active site 351348012105 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 351348012106 ATP-dependent helicase HepA; Validated; Region: PRK04914 351348012107 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 351348012108 ATP binding site [chemical binding]; other site 351348012109 putative Mg++ binding site [ion binding]; other site 351348012110 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 351348012111 nucleotide binding region [chemical binding]; other site 351348012112 ATP-binding site [chemical binding]; other site 351348012113 putative sulfate transport protein CysZ; Validated; Region: PRK04949 351348012114 VanZ like family; Region: VanZ; cl01971 351348012115 Predicted methyltransferase [General function prediction only]; Region: COG3897 351348012116 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 351348012117 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 351348012118 active site residue [active] 351348012119 mechanosensitive channel MscS; Provisional; Region: PRK10334 351348012120 Conserved TM helix; Region: TM_helix; pfam05552 351348012121 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351348012122 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 351348012123 putative deacylase active site [active] 351348012124 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 351348012125 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 351348012126 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 351348012127 nucleotide binding site/active site [active] 351348012128 HIT family signature motif; other site 351348012129 catalytic residue [active] 351348012130 Domain of unknown function DUF21; Region: DUF21; pfam01595 351348012131 FOG: CBS domain [General function prediction only]; Region: COG0517 351348012132 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 351348012133 transcriptional regulator PhoU; Provisional; Region: PRK11115 351348012134 PhoU domain; Region: PhoU; pfam01895 351348012135 PhoU domain; Region: PhoU; pfam01895 351348012136 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 351348012137 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 351348012138 Walker A/P-loop; other site 351348012139 ATP binding site [chemical binding]; other site 351348012140 Q-loop/lid; other site 351348012141 ABC transporter signature motif; other site 351348012142 Walker B; other site 351348012143 D-loop; other site 351348012144 H-loop/switch region; other site 351348012145 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 351348012146 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 351348012147 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 351348012148 dimer interface [polypeptide binding]; other site 351348012149 conserved gate region; other site 351348012150 putative PBP binding loops; other site 351348012151 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 351348012152 ABC-ATPase subunit interface; other site 351348012153 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 351348012154 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 351348012155 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 351348012156 dimer interface [polypeptide binding]; other site 351348012157 conserved gate region; other site 351348012158 putative PBP binding loops; other site 351348012159 ABC-ATPase subunit interface; other site 351348012160 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 351348012161 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 351348012162 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 351348012163 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351348012164 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; cd01635 351348012165 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 351348012166 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348012167 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 351348012168 Walker A/P-loop; other site 351348012169 ATP binding site [chemical binding]; other site 351348012170 Q-loop/lid; other site 351348012171 ABC transporter signature motif; other site 351348012172 Walker B; other site 351348012173 D-loop; other site 351348012174 H-loop/switch region; other site 351348012175 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12748 351348012176 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 351348012177 NADP binding site [chemical binding]; other site 351348012178 homodimer interface [polypeptide binding]; other site 351348012179 active site 351348012180 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 351348012181 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 351348012182 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351348012183 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 351348012184 dimerization interface [polypeptide binding]; other site 351348012185 putative DNA binding site [nucleotide binding]; other site 351348012186 putative Zn2+ binding site [ion binding]; other site 351348012187 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 351348012188 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 351348012189 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 351348012190 arsenical-resistance protein; Region: acr3; TIGR00832 351348012191 Bacitracin resistance protein BacA; Region: BacA; pfam02673 351348012192 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 351348012193 Part of AAA domain; Region: AAA_19; pfam13245 351348012194 Family description; Region: UvrD_C_2; pfam13538 351348012195 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351348012196 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 351348012197 dimerization interface [polypeptide binding]; other site 351348012198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348012199 dimer interface [polypeptide binding]; other site 351348012200 putative CheW interface [polypeptide binding]; other site 351348012201 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 351348012202 PBP superfamily domain; Region: PBP_like_2; cl17296 351348012203 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351348012204 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 351348012205 tetramerization interface [polypeptide binding]; other site 351348012206 NAD(P) binding site [chemical binding]; other site 351348012207 catalytic residues [active] 351348012208 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 351348012209 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 351348012210 active site 351348012211 Zn binding site [ion binding]; other site 351348012212 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 351348012213 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 351348012214 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 351348012215 Ligand Binding Site [chemical binding]; other site 351348012216 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 351348012217 active site residue [active] 351348012218 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 351348012219 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 351348012220 Cytochrome c; Region: Cytochrom_C; cl11414 351348012221 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 351348012222 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 351348012223 substrate binding site [chemical binding]; other site 351348012224 oxyanion hole (OAH) forming residues; other site 351348012225 trimer interface [polypeptide binding]; other site 351348012226 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 351348012227 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 351348012228 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 351348012229 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 351348012230 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 351348012231 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 351348012232 Helicase; Region: Helicase_RecD; pfam05127 351348012233 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 351348012234 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 351348012235 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351348012236 Part of AAA domain; Region: AAA_19; pfam13245 351348012237 Family description; Region: UvrD_C_2; pfam13538 351348012238 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 351348012239 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351348012240 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348012241 ligand binding site [chemical binding]; other site 351348012242 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 351348012243 S-adenosylmethionine binding site [chemical binding]; other site 351348012244 putative RNA methyltransferase; Provisional; Region: PRK10433 351348012245 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 351348012246 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 351348012247 hydroxyglutarate oxidase; Provisional; Region: PRK11728 351348012248 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 351348012249 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 351348012250 active site 351348012251 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 351348012252 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348012253 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348012254 Zn2+ binding site [ion binding]; other site 351348012255 Mg2+ binding site [ion binding]; other site 351348012256 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 351348012257 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 351348012258 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348012259 PAS domain S-box; Region: sensory_box; TIGR00229 351348012260 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 351348012261 putative active site [active] 351348012262 heme pocket [chemical binding]; other site 351348012263 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 351348012264 PAS domain; Region: PAS_9; pfam13426 351348012265 putative active site [active] 351348012266 heme pocket [chemical binding]; other site 351348012267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012269 metal binding site [ion binding]; metal-binding site 351348012270 active site 351348012271 I-site; other site 351348012272 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 351348012273 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 351348012274 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 351348012275 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 351348012276 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 351348012277 intermolecular recognition site; other site 351348012278 active site 351348012279 dimerization interface [polypeptide binding]; other site 351348012280 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012281 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 351348012282 active site 351348012283 phosphorylation site [posttranslational modification] 351348012284 intermolecular recognition site; other site 351348012285 dimerization interface [polypeptide binding]; other site 351348012286 HDOD domain; Region: HDOD; pfam08668 351348012287 Hpt domain; Region: Hpt; pfam01627 351348012288 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012289 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 351348012290 active site 351348012291 phosphorylation site [posttranslational modification] 351348012292 intermolecular recognition site; other site 351348012293 dimerization interface [polypeptide binding]; other site 351348012294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012296 metal binding site [ion binding]; metal-binding site 351348012297 active site 351348012298 I-site; other site 351348012299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348012300 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 351348012301 dimerization interface [polypeptide binding]; other site 351348012302 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 351348012303 dimer interface [polypeptide binding]; other site 351348012304 phosphorylation site [posttranslational modification] 351348012305 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 351348012306 ATP binding site [chemical binding]; other site 351348012307 Mg2+ binding site [ion binding]; other site 351348012308 G-X-G motif; other site 351348012309 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351348012310 GAF domain; Region: GAF; pfam01590 351348012311 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351348012312 GAF domain; Region: GAF; pfam01590 351348012313 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 351348012314 putative active site [active] 351348012315 heme pocket [chemical binding]; other site 351348012316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348012317 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 351348012318 dimer interface [polypeptide binding]; other site 351348012319 phosphorylation site [posttranslational modification] 351348012320 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 351348012321 ATP binding site [chemical binding]; other site 351348012322 Mg2+ binding site [ion binding]; other site 351348012323 G-X-G motif; other site 351348012324 CHASE domain; Region: CHASE; cl01369 351348012325 PAS domain S-box; Region: sensory_box; TIGR00229 351348012326 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348012327 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 351348012328 dimer interface [polypeptide binding]; other site 351348012329 phosphorylation site [posttranslational modification] 351348012330 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 351348012331 ATP binding site [chemical binding]; other site 351348012332 Mg2+ binding site [ion binding]; other site 351348012333 G-X-G motif; other site 351348012334 aconitate hydratase; Validated; Region: PRK09277 351348012335 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 351348012336 substrate binding site [chemical binding]; other site 351348012337 ligand binding site [chemical binding]; other site 351348012338 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 351348012339 substrate binding site [chemical binding]; other site 351348012340 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 351348012341 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 351348012342 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 351348012343 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 351348012344 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351348012345 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 351348012346 putative active site [active] 351348012347 heme pocket [chemical binding]; other site 351348012348 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 351348012349 dimer interface [polypeptide binding]; other site 351348012350 phosphorylation site [posttranslational modification] 351348012351 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 351348012352 ATP binding site [chemical binding]; other site 351348012353 Mg2+ binding site [ion binding]; other site 351348012354 G-X-G motif; other site 351348012355 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012356 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 351348012357 active site 351348012358 phosphorylation site [posttranslational modification] 351348012359 intermolecular recognition site; other site 351348012360 dimerization interface [polypeptide binding]; other site 351348012361 Hpt domain; Region: Hpt; pfam01627 351348012362 putative binding surface; other site 351348012363 active site 351348012364 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 351348012365 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 351348012366 active site 351348012367 phosphorylation site [posttranslational modification] 351348012368 intermolecular recognition site; other site 351348012369 dimerization interface [polypeptide binding]; other site 351348012370 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348012371 Zn2+ binding site [ion binding]; other site 351348012372 Mg2+ binding site [ion binding]; other site 351348012373 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 351348012374 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351348012375 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 351348012376 ligand binding site [chemical binding]; other site 351348012377 MAPEG family; Region: MAPEG; cl09190 351348012378 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 351348012379 EXS family; Region: EXS; cl03905 351348012380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351348012381 putative acyl-acceptor binding pocket; other site 351348012382 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 351348012383 active site 351348012384 catalytic site [active] 351348012385 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 351348012386 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 351348012387 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 351348012388 metal ion-dependent adhesion site (MIDAS); other site 351348012389 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 351348012390 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 351348012391 active site 351348012392 phosphorylation site [posttranslational modification] 351348012393 intermolecular recognition site; other site 351348012394 dimerization interface [polypeptide binding]; other site 351348012395 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 351348012396 DNA binding site [nucleotide binding] 351348012397 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 351348012398 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 351348012399 putative ligand binding site [chemical binding]; other site 351348012400 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 351348012401 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 351348012402 dimer interface [polypeptide binding]; other site 351348012403 phosphorylation site [posttranslational modification] 351348012404 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 351348012405 ATP binding site [chemical binding]; other site 351348012406 Mg2+ binding site [ion binding]; other site 351348012407 G-X-G motif; other site 351348012408 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 351348012409 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 351348012410 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 351348012411 Walker A motif; other site 351348012412 ATP binding site [chemical binding]; other site 351348012413 Walker B motif; other site 351348012414 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348012415 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348012416 substrate binding pocket [chemical binding]; other site 351348012417 membrane-bound complex binding site; other site 351348012418 hinge residues; other site 351348012419 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348012420 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348012421 substrate binding pocket [chemical binding]; other site 351348012422 membrane-bound complex binding site; other site 351348012423 hinge residues; other site 351348012424 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 351348012425 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348012426 substrate binding pocket [chemical binding]; other site 351348012427 membrane-bound complex binding site; other site 351348012428 hinge residues; other site 351348012429 Tetrahydromethanopterin S-methyltransferase, subunit E; Region: MtrE; cl01675 351348012430 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012432 metal binding site [ion binding]; metal-binding site 351348012433 active site 351348012434 I-site; other site 351348012435 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 351348012436 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 351348012437 dimer interface [polypeptide binding]; other site 351348012438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348012439 catalytic residue [active] 351348012440 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 351348012441 PGAP1-like protein; Region: PGAP1; pfam07819 351348012442 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 351348012443 DNA ligase; Provisional; Region: PRK09125 351348012444 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 351348012445 DNA binding site [nucleotide binding] 351348012446 active site 351348012447 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 351348012448 DNA binding site [nucleotide binding] 351348012449 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 351348012450 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 351348012451 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 351348012452 putative active site [active] 351348012453 catalytic site [active] 351348012454 putative metal binding site [ion binding]; other site 351348012455 SPFH domain / Band 7 family; Region: Band_7; pfam01145 351348012456 ATPase involved in DNA repair; Region: DUF3686; pfam12458 351348012457 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 351348012458 Walker A motif; other site 351348012459 ATP binding site [chemical binding]; other site 351348012460 Walker B motif; other site 351348012461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 351348012462 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 351348012463 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 351348012464 PspA/IM30 family; Region: PspA_IM30; pfam04012 351348012465 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 351348012466 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 351348012467 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 351348012468 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 351348012469 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 351348012470 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351348012471 DNA binding residues [nucleotide binding] 351348012472 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348012473 Integrase core domain; Region: rve; pfam00665 351348012474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 351348012475 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 351348012476 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 351348012477 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 351348012478 Walker A motif; other site 351348012479 ATP binding site [chemical binding]; other site 351348012480 Walker B motif; other site 351348012481 arginine finger; other site 351348012482 Transposase domain (DUF772); Region: DUF772; pfam05598 351348012483 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 351348012484 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 351348012485 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348012486 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 351348012487 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 351348012488 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 351348012489 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 351348012490 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 351348012491 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 351348012492 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 351348012493 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 351348012494 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 351348012495 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 351348012496 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 351348012497 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 351348012498 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 351348012499 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 351348012500 Walker A motif; other site 351348012501 ATP binding site [chemical binding]; other site 351348012502 Walker B motif; other site 351348012503 arginine finger; other site 351348012504 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 351348012505 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 351348012506 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 351348012507 Walker A motif; other site 351348012508 ATP binding site [chemical binding]; other site 351348012509 Walker B motif; other site 351348012510 arginine finger; other site 351348012511 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 351348012512 Walker A motif; other site 351348012513 ATP binding site [chemical binding]; other site 351348012514 Walker B motif; other site 351348012515 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 351348012516 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 351348012517 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 351348012518 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 351348012519 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 351348012520 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 351348012521 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 351348012522 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 351348012523 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 351348012524 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 351348012525 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 351348012526 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 351348012527 Protein of unknown function (DUF877); Region: DUF877; pfam05943 351348012528 Protein of unknown function (DUF770); Region: DUF770; pfam05591 351348012529 Acyl CoA binding protein; Region: ACBP; pfam00887 351348012530 acyl-CoA binding pocket [chemical binding]; other site 351348012531 CoA binding site [chemical binding]; other site 351348012532 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 351348012533 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 351348012534 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 351348012535 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351348012536 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351348012537 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 351348012538 dimerization interface [polypeptide binding]; other site 351348012539 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 351348012540 dimer interface [polypeptide binding]; other site 351348012541 phosphorylation site [posttranslational modification] 351348012542 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 351348012543 ATP binding site [chemical binding]; other site 351348012544 Mg2+ binding site [ion binding]; other site 351348012545 G-X-G motif; other site 351348012546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351348012547 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 351348012548 active site 351348012549 phosphorylation site [posttranslational modification] 351348012550 intermolecular recognition site; other site 351348012551 dimerization interface [polypeptide binding]; other site 351348012552 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 351348012553 DNA binding site [nucleotide binding] 351348012554 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 351348012555 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351348012556 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351348012557 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 351348012558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351348012559 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 351348012560 DNA binding residues [nucleotide binding] 351348012561 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 351348012562 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 351348012563 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 351348012564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351348012565 Walker A/P-loop; other site 351348012566 ATP binding site [chemical binding]; other site 351348012567 Q-loop/lid; other site 351348012568 ABC transporter signature motif; other site 351348012569 Walker B; other site 351348012570 D-loop; other site 351348012571 H-loop/switch region; other site 351348012572 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 351348012573 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 351348012574 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 351348012575 P loop; other site 351348012576 GTP binding site [chemical binding]; other site 351348012577 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 351348012578 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 351348012579 S-adenosylmethionine binding site [chemical binding]; other site 351348012580 Fatty acid desaturase; Region: FA_desaturase; pfam00487 351348012581 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 351348012582 Di-iron ligands [ion binding]; other site 351348012583 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 351348012584 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348012585 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 351348012586 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 351348012587 DNA binding site [nucleotide binding] 351348012588 catalytic residue [active] 351348012589 H2TH interface [polypeptide binding]; other site 351348012590 putative catalytic residues [active] 351348012591 turnover-facilitating residue; other site 351348012592 intercalation triad [nucleotide binding]; other site 351348012593 8OG recognition residue [nucleotide binding]; other site 351348012594 putative reading head residues; other site 351348012595 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 351348012596 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 351348012597 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 351348012598 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 351348012599 motif II; other site 351348012600 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 351348012601 RNA binding surface [nucleotide binding]; other site 351348012602 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 351348012603 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 351348012604 dimerization interface [polypeptide binding]; other site 351348012605 domain crossover interface; other site 351348012606 redox-dependent activation switch; other site 351348012607 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 351348012608 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 351348012609 active site 351348012610 substrate-binding site [chemical binding]; other site 351348012611 metal-binding site [ion binding] 351348012612 ATP binding site [chemical binding]; other site 351348012613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 351348012614 Transposase; Region: DDE_Tnp_ISL3; pfam01610 351348012615 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 351348012616 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 351348012617 IHF dimer interface [polypeptide binding]; other site 351348012618 IHF - DNA interface [nucleotide binding]; other site 351348012619 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 351348012620 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 351348012621 dihydroorotase; Validated; Region: pyrC; PRK09357 351348012622 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 351348012623 active site 351348012624 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 351348012625 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351348012626 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351348012627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351348012628 active site 351348012629 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 351348012630 hypothetical protein; Validated; Region: PRK00228 351348012631 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 351348012632 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 351348012633 glutathione synthetase; Provisional; Region: PRK05246 351348012634 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 351348012635 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 351348012636 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012637 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 351348012638 active site 351348012639 phosphorylation site [posttranslational modification] 351348012640 intermolecular recognition site; other site 351348012641 dimerization interface [polypeptide binding]; other site 351348012642 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012643 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 351348012644 active site 351348012645 phosphorylation site [posttranslational modification] 351348012646 intermolecular recognition site; other site 351348012647 dimerization interface [polypeptide binding]; other site 351348012648 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 351348012649 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 351348012650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348012651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348012652 dimer interface [polypeptide binding]; other site 351348012653 putative CheW interface [polypeptide binding]; other site 351348012654 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351348012655 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 351348012656 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 351348012657 S-adenosylmethionine binding site [chemical binding]; other site 351348012658 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; cd00088 351348012659 putative binding surface; other site 351348012660 active site 351348012661 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; cd00088 351348012662 putative binding surface; other site 351348012663 active site 351348012664 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; cd00088 351348012665 putative binding surface; other site 351348012666 active site 351348012667 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; cd00088 351348012668 putative binding surface; other site 351348012669 active site 351348012670 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; cd00088 351348012671 putative binding surface; other site 351348012672 active site 351348012673 Hpt domain; Region: Hpt; pfam01627 351348012674 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; cd00088 351348012675 putative binding surface; other site 351348012676 active site 351348012677 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351348012678 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351348012679 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 351348012680 ATP binding site [chemical binding]; other site 351348012681 Mg2+ binding site [ion binding]; other site 351348012682 G-X-G motif; other site 351348012683 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 351348012684 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 351348012685 Response regulator receiver domain; Region: Response_reg; pfam00072 351348012686 active site 351348012687 phosphorylation site [posttranslational modification] 351348012688 intermolecular recognition site; other site 351348012689 dimerization interface [polypeptide binding]; other site 351348012690 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 351348012691 CheB methylesterase; Region: CheB_methylest; pfam01339 351348012692 CheW-like domain; Region: CheW; pfam01584 351348012693 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351348012694 metal binding site 2 [ion binding]; metal-binding site 351348012695 putative DNA binding helix; other site 351348012696 metal binding site 1 [ion binding]; metal-binding site 351348012697 dimer interface [polypeptide binding]; other site 351348012698 structural Zn2+ binding site [ion binding]; other site 351348012699 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 351348012700 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 351348012701 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 351348012702 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 351348012703 ABC-ATPase subunit interface; other site 351348012704 dimer interface [polypeptide binding]; other site 351348012705 putative PBP binding regions; other site 351348012706 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 351348012707 PAS domain; Region: PAS_9; pfam13426 351348012708 putative active site [active] 351348012709 heme pocket [chemical binding]; other site 351348012710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012712 metal binding site [ion binding]; metal-binding site 351348012713 active site 351348012714 I-site; other site 351348012715 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351348012716 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 351348012717 homodecamer interface [polypeptide binding]; other site 351348012718 GTP cyclohydrolase I; Provisional; Region: PLN03044 351348012719 active site 351348012720 putative catalytic site residues [active] 351348012721 zinc binding site [ion binding]; other site 351348012722 GTP-CH-I/GFRP interaction surface; other site 351348012723 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 351348012724 active site 351348012725 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 351348012726 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 351348012727 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351348012728 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351348012729 Zn2+ binding site [ion binding]; other site 351348012730 Mg2+ binding site [ion binding]; other site 351348012731 CHASE domain; Region: CHASE; cl01369 351348012732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012734 metal binding site [ion binding]; metal-binding site 351348012735 active site 351348012736 I-site; other site 351348012737 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 351348012738 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 351348012739 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 351348012740 DNA binding residues [nucleotide binding] 351348012741 dimer interface [polypeptide binding]; other site 351348012742 copper exporting ATPase; Provisional; Region: copA; PRK10671 351348012743 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 351348012744 metal-binding site [ion binding] 351348012745 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 351348012746 metal-binding site [ion binding] 351348012747 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351348012748 Soluble P-type ATPase [General function prediction only]; Region: COG4087 351348012749 Predicted metal-binding protein [General function prediction only]; Region: COG3019 351348012750 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 351348012751 dimerization interface [polypeptide binding]; other site 351348012752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012754 metal binding site [ion binding]; metal-binding site 351348012755 active site 351348012756 I-site; other site 351348012757 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 351348012758 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 351348012759 RNA binding site [nucleotide binding]; other site 351348012760 RNB domain; Region: RNB; pfam00773 351348012761 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 351348012762 RNA binding site [nucleotide binding]; other site 351348012763 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351348012764 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 351348012765 putative acyl-acceptor binding pocket; other site 351348012766 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 351348012767 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 351348012768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 351348012769 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 351348012770 putative Zn2+ binding site [ion binding]; other site 351348012771 putative DNA binding site [nucleotide binding]; other site 351348012772 dimerization interface [polypeptide binding]; other site 351348012773 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 351348012774 substrate binding pocket [chemical binding]; other site 351348012775 dimerization interface [polypeptide binding]; other site 351348012776 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 351348012777 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 351348012778 putative substrate translocation pore; other site 351348012779 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 351348012780 dimer interface [polypeptide binding]; other site 351348012781 catalytic triad [active] 351348012782 peroxidatic and resolving cysteines [active] 351348012783 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 351348012784 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 351348012785 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 351348012786 active site 351348012787 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; cd02883 351348012788 nudix motif; other site 351348012789 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351348012790 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 351348012791 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 351348012792 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 351348012793 putative active site [active] 351348012794 Zn binding site [ion binding]; other site 351348012795 EamA-like transporter family; Region: EamA; pfam00892 351348012796 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 351348012797 EamA-like transporter family; Region: EamA; pfam00892 351348012798 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 351348012799 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 351348012800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351348012801 homodimer interface [polypeptide binding]; other site 351348012802 catalytic residue [active] 351348012803 Predicted permeases [General function prediction only]; Region: COG0679 351348012804 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 351348012805 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 351348012806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351348012807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351348012808 dimer interface [polypeptide binding]; other site 351348012809 putative CheW interface [polypeptide binding]; other site 351348012810 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 351348012811 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348012812 active site 351348012813 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 351348012814 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 351348012815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 351348012816 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 351348012817 dimerization interface [polypeptide binding]; other site 351348012818 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 351348012819 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 351348012820 putative active site pocket [active] 351348012821 dimerization interface [polypeptide binding]; other site 351348012822 putative catalytic residue [active] 351348012823 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 351348012824 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 351348012825 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 351348012826 RNA binding surface [nucleotide binding]; other site 351348012827 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 351348012828 probable active site [active] 351348012829 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 351348012830 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 351348012831 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 351348012832 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 351348012833 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 351348012834 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 351348012835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351348012836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348012837 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 351348012838 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 351348012839 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 351348012840 putative active site [active] 351348012841 putative FMN binding site [chemical binding]; other site 351348012842 putative substrate binding site [chemical binding]; other site 351348012843 putative catalytic residue [active] 351348012844 Predicted transcriptional regulators [Transcription]; Region: COG1733 351348012845 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 351348012846 OmpW family; Region: OmpW; cl17427 351348012847 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 351348012848 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 351348012849 ATP binding site [chemical binding]; other site 351348012850 Mg++ binding site [ion binding]; other site 351348012851 motif III; other site 351348012852 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 351348012853 nucleotide binding region [chemical binding]; other site 351348012854 ATP-binding site [chemical binding]; other site 351348012855 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 351348012856 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 351348012857 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351348012858 catalytic residues [active] 351348012859 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 351348012860 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 351348012861 DNA binding residues [nucleotide binding] 351348012862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351348012863 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 351348012864 NAD(P) binding site [chemical binding]; other site 351348012865 active site 351348012866 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 351348012867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 351348012868 Uncharacterized conserved protein [Function unknown]; Region: COG3461 351348012869 Transposase domain (DUF772); Region: DUF772; pfam05598 351348012870 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 351348012871 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 351348012872 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 351348012873 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 351348012874 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 351348012875 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 351348012876 active site 351348012877 Zn binding site [ion binding]; other site 351348012878 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 351348012879 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 351348012880 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351348012881 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351348012882 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 351348012883 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 351348012884 catalytic residue [active] 351348012885 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 351348012886 catalytic residues [active] 351348012887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351348012888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351348012889 peroxiredoxin; Region: AhpC; TIGR03137 351348012890 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 351348012891 dimer interface [polypeptide binding]; other site 351348012892 decamer (pentamer of dimers) interface [polypeptide binding]; other site 351348012893 catalytic triad [active] 351348012894 peroxidatic and resolving cysteines [active] 351348012895 BCCT family transporter; Region: BCCT; cl00569 351348012896 choline dehydrogenase; Validated; Region: PRK02106 351348012897 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 351348012898 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 351348012899 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 351348012900 tetrameric interface [polypeptide binding]; other site 351348012901 NAD binding site [chemical binding]; other site 351348012902 catalytic residues [active] 351348012903 transcriptional regulator BetI; Validated; Region: PRK00767 351348012904 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351348012905 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 351348012906 enoyl-CoA hydratase; Provisional; Region: PRK09245 351348012907 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 351348012908 substrate binding site [chemical binding]; other site 351348012909 oxyanion hole (OAH) forming residues; other site 351348012910 trimer interface [polypeptide binding]; other site 351348012911 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 351348012912 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 351348012913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012915 metal binding site [ion binding]; metal-binding site 351348012916 active site 351348012917 I-site; other site 351348012918 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 351348012919 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 351348012920 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351348012921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351348012922 metal binding site [ion binding]; metal-binding site 351348012923 active site 351348012924 I-site; other site 351348012925 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351348012926 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 351348012927 active site 351348012928 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 351348012929 non-specific DNA binding site [nucleotide binding]; other site 351348012930 salt bridge; other site 351348012931 sequence-specific DNA binding site [nucleotide binding]; other site 351348012932 Calcium-activated chloride channel; Region: CLCA_N; pfam08434 351348012933 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 351348012934 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 351348012935 putative ligand binding site [chemical binding]; other site 351348012936 putative NAD binding site [chemical binding]; other site 351348012937 catalytic site [active] 351348012938 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 351348012939 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 351348012940 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 351348012941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348012942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 351348012943 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 351348012944 dimer interface [polypeptide binding]; other site 351348012945 putative radical transfer pathway; other site 351348012946 diiron center [ion binding]; other site 351348012947 tyrosyl radical; other site 351348012948 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 351348012949 ATP cone domain; Region: ATP-cone; pfam03477 351348012950 ATP cone domain; Region: ATP-cone; pfam03477 351348012951 Class I ribonucleotide reductase; Region: RNR_I; cd01679 351348012952 active site 351348012953 dimer interface [polypeptide binding]; other site 351348012954 catalytic residues [active] 351348012955 effector binding site; other site 351348012956 R2 peptide binding site; other site 351348012957 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 351348012958 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 351348012959 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 351348012960 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 351348012961 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 351348012962 Walker A motif; other site 351348012963 ATP binding site [chemical binding]; other site 351348012964 Walker B motif; other site 351348012965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351348012966 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 351348012967 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 351348012968 multimer interface [polypeptide binding]; other site 351348012969 active site 351348012970 catalytic triad [active] 351348012971 dimer interface [polypeptide binding]; other site 351348012972 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 351348012973 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351348012974 Walker A/P-loop; other site 351348012975 ATP binding site [chemical binding]; other site 351348012976 Q-loop/lid; other site 351348012977 ABC transporter signature motif; other site 351348012978 Walker B; other site 351348012979 D-loop; other site 351348012980 H-loop/switch region; other site 351348012981 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 351348012982 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351348012983 Walker A/P-loop; other site 351348012984 ATP binding site [chemical binding]; other site 351348012985 Q-loop/lid; other site 351348012986 ABC transporter signature motif; other site 351348012987 Walker B; other site 351348012988 D-loop; other site 351348012989 H-loop/switch region; other site 351348012990 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 351348012991 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 351348012992 TM-ABC transporter signature motif; other site 351348012993 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351348012994 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 351348012995 TM-ABC transporter signature motif; other site 351348012996 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 351348012997 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 351348012998 putative ligand binding site [chemical binding]; other site 351348012999 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 351348013000 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 351348013001 dimer interface [polypeptide binding]; other site 351348013002 phosphorylation site [posttranslational modification] 351348013003 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 351348013004 ATP binding site [chemical binding]; other site 351348013005 Mg2+ binding site [ion binding]; other site 351348013006 G-X-G motif; other site 351348013007 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 351348013008 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 351348013009 active site 351348013010 phosphorylation site [posttranslational modification] 351348013011 intermolecular recognition site; other site 351348013012 dimerization interface [polypeptide binding]; other site 351348013013 Response regulator receiver domain; Region: Response_reg; pfam00072 351348013014 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 351348013015 active site 351348013016 phosphorylation site [posttranslational modification] 351348013017 intermolecular recognition site; other site 351348013018 dimerization interface [polypeptide binding]; other site 351348013019 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 351348013020 DNA binding residues [nucleotide binding] 351348013021 dimerization interface [polypeptide binding]; other site 351348013022 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348013023 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348013024 substrate binding pocket [chemical binding]; other site 351348013025 membrane-bound complex binding site; other site 351348013026 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 351348013027 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 351348013028 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 351348013029 glutaminase active site [active] 351348013030 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 351348013031 dimer interface [polypeptide binding]; other site 351348013032 active site 351348013033 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 351348013034 dimer interface [polypeptide binding]; other site 351348013035 active site 351348013036 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 351348013037 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 351348013038 Substrate binding site; other site 351348013039 Mg++ binding site; other site 351348013040 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 351348013041 active site 351348013042 substrate binding site [chemical binding]; other site 351348013043 CoA binding site [chemical binding]; other site 351348013044 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 351348013045 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 351348013046 gamma subunit interface [polypeptide binding]; other site 351348013047 epsilon subunit interface [polypeptide binding]; other site 351348013048 LBP interface [polypeptide binding]; other site 351348013049 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 351348013050 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351348013051 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 351348013052 alpha subunit interaction interface [polypeptide binding]; other site 351348013053 Walker A motif; other site 351348013054 ATP binding site [chemical binding]; other site 351348013055 Walker B motif; other site 351348013056 inhibitor binding site; inhibition site 351348013057 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351348013058 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 351348013059 core domain interface [polypeptide binding]; other site 351348013060 delta subunit interface [polypeptide binding]; other site 351348013061 epsilon subunit interface [polypeptide binding]; other site 351348013062 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 351348013063 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351348013064 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 351348013065 beta subunit interaction interface [polypeptide binding]; other site 351348013066 Walker A motif; other site 351348013067 ATP binding site [chemical binding]; other site 351348013068 Walker B motif; other site 351348013069 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351348013070 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 351348013071 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 351348013072 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 351348013073 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 351348013074 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 351348013075 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 351348013076 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 351348013077 ATP synthase I chain; Region: ATP_synt_I; cl09170 351348013078 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 351348013079 ParB-like nuclease domain; Region: ParBc; pfam02195 351348013080 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 351348013081 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351348013082 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 351348013083 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 351348013084 Magnesium ion binding site [ion binding]; other site 351348013085 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 351348013086 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 351348013087 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 351348013088 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 351348013089 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 351348013090 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 351348013091 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 351348013092 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351348013093 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 351348013094 HlyD family secretion protein; Region: HlyD_3; pfam13437 351348013095 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 351348013096 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 351348013097 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 351348013098 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351348013099 active site 351348013100 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 351348013101 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 351348013102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351348013103 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 351348013104 substrate binding pocket [chemical binding]; other site 351348013105 membrane-bound complex binding site; other site 351348013106 hinge residues; other site 351348013107 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 351348013108 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 351348013109 trmE is a tRNA modification GTPase; Region: trmE; cd04164 351348013110 G1 box; other site 351348013111 GTP/Mg2+ binding site [chemical binding]; other site 351348013112 Switch I region; other site 351348013113 G2 box; other site 351348013114 Switch II region; other site 351348013115 G3 box; other site 351348013116 G4 box; other site 351348013117 G5 box; other site 351348013118 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 351348013119 membrane protein insertase; Provisional; Region: PRK01318 351348013120 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 351348013121 Haemolytic domain; Region: Haemolytic; pfam01809 351348013122 Ribonuclease P; Region: Ribonuclease_P; cl00457 351348013123 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399