-- dump date 20140619_045714 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1005048000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1005048000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1005048000003 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 1005048000004 Walker A motif; other site 1005048000005 ATP binding site [chemical binding]; other site 1005048000006 Walker B motif; other site 1005048000007 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 1005048000008 arginine finger; other site 1005048000009 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 1005048000010 DnaA box-binding interface [nucleotide binding]; other site 1005048000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1005048000012 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 1005048000013 putative DNA binding surface [nucleotide binding]; other site 1005048000014 dimer interface [polypeptide binding]; other site 1005048000015 beta-clamp/clamp loader binding surface; other site 1005048000016 beta-clamp/translesion DNA polymerase binding surface; other site 1005048000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1005048000018 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 1005048000019 ATP binding site [chemical binding]; other site 1005048000020 Mg2+ binding site [ion binding]; other site 1005048000021 G-X-G motif; other site 1005048000022 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 1005048000023 anchoring element; other site 1005048000024 dimer interface [polypeptide binding]; other site 1005048000025 ATP binding site [chemical binding]; other site 1005048000026 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 1005048000027 active site 1005048000028 putative metal-binding site [ion binding]; other site 1005048000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1005048000030 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1005048000031 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1005048000032 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 1005048000033 ATP binding site [chemical binding]; other site 1005048000034 putative Mg++ binding site [ion binding]; other site 1005048000035 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1005048000036 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 1005048000037 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1005048000038 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1005048000039 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1005048000040 Protein of unknown function DUF262; Region: DUF262; pfam03235 1005048000041 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1005048000042 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1005048000043 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 1005048000044 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1005048000045 putative active site [active] 1005048000046 putative NTP binding site [chemical binding]; other site 1005048000047 putative nucleic acid binding site [nucleotide binding]; other site 1005048000048 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1005048000049 putative regulator PrlF; Provisional; Region: PRK09974 1005048000050 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1005048000051 Cupin; Region: Cupin_6; pfam12852 1005048000052 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048000053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048000054 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048000055 short chain dehydrogenase; Provisional; Region: PRK06180 1005048000056 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1005048000057 NADP binding site [chemical binding]; other site 1005048000058 active site 1005048000059 steroid binding site; other site 1005048000060 Fic family protein [Function unknown]; Region: COG3177 1005048000061 Fic/DOC family; Region: Fic; pfam02661 1005048000062 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1005048000063 glutathionine S-transferase; Provisional; Region: PRK10542 1005048000064 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1005048000065 C-terminal domain interface [polypeptide binding]; other site 1005048000066 GSH binding site (G-site) [chemical binding]; other site 1005048000067 dimer interface [polypeptide binding]; other site 1005048000068 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1005048000069 dimer interface [polypeptide binding]; other site 1005048000070 N-terminal domain interface [polypeptide binding]; other site 1005048000071 substrate binding pocket (H-site) [chemical binding]; other site 1005048000072 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1005048000073 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1005048000074 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 1005048000075 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 1005048000076 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1005048000077 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 1005048000078 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1005048000079 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1005048000080 putative sugar binding sites [chemical binding]; other site 1005048000081 Q-X-W motif; other site 1005048000082 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1005048000083 Sel1-like repeats; Region: SEL1; smart00671 1005048000084 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005048000085 putative active site [active] 1005048000086 catalytic site [active] 1005048000087 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005048000088 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005048000089 putative active site [active] 1005048000090 putative active site [active] 1005048000091 catalytic site [active] 1005048000092 catalytic site [active] 1005048000093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048000094 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048000095 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048000096 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048000097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1005048000098 potential frameshift: common BLAST hit: gi|134292719|ref|YP_001116455.1| stearoyl-CoA 9-desaturase 1005048000099 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 1005048000100 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048000101 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 1005048000102 Di-iron ligands [ion binding]; other site 1005048000103 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 1005048000104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048000105 Walker A/P-loop; other site 1005048000106 ATP binding site [chemical binding]; other site 1005048000107 ABC transporter signature motif; other site 1005048000108 Walker B; other site 1005048000109 D-loop; other site 1005048000110 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048000111 trimer interface [polypeptide binding]; other site 1005048000112 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048000113 trimer interface [polypeptide binding]; other site 1005048000114 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1005048000115 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1005048000116 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048000117 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048000118 tartrate dehydrogenase; Region: TTC; TIGR02089 1005048000119 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1005048000120 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1005048000121 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 1005048000122 catalytic residue [active] 1005048000123 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 1005048000124 catalytic residues [active] 1005048000125 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048000126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048000127 peroxiredoxin; Region: AhpC; TIGR03137 1005048000128 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 1005048000129 dimer interface [polypeptide binding]; other site 1005048000130 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1005048000131 catalytic triad [active] 1005048000132 peroxidatic and resolving cysteines [active] 1005048000133 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1005048000134 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1005048000135 active site 1005048000136 metal binding site [ion binding]; metal-binding site 1005048000137 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1005048000138 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1005048000139 Sel1-like repeats; Region: SEL1; smart00671 1005048000140 Sel1-like repeats; Region: SEL1; smart00671 1005048000141 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1005048000142 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1005048000143 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1005048000144 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1005048000145 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048000146 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1005048000147 classical (c) SDRs; Region: SDR_c; cd05233 1005048000148 NAD(P) binding site [chemical binding]; other site 1005048000149 active site 1005048000150 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 1005048000151 dimer interface [polypeptide binding]; other site 1005048000152 active site 1005048000153 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1005048000154 Sulfatase; Region: Sulfatase; cl17466 1005048000155 Sulfatase; Region: Sulfatase; cl17466 1005048000156 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1005048000157 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1005048000158 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1005048000159 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1005048000160 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005048000161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048000162 DNA-binding site [nucleotide binding]; DNA binding site 1005048000163 FCD domain; Region: FCD; pfam07729 1005048000164 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 1005048000165 homodimer interface [polypeptide binding]; other site 1005048000166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000167 catalytic residue [active] 1005048000168 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 1005048000169 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048000170 putative substrate translocation pore; other site 1005048000171 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1005048000172 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048000173 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048000174 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1005048000175 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1005048000176 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1005048000177 active site 1005048000178 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1005048000179 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 1005048000180 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1005048000181 CAAX protease self-immunity; Region: Abi; pfam02517 1005048000182 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1005048000183 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1005048000184 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1005048000185 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1005048000186 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1005048000187 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1005048000188 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005048000189 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048000190 ligand binding site [chemical binding]; other site 1005048000191 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1005048000192 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1005048000193 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1005048000194 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048000195 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048000196 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1005048000197 RHS Repeat; Region: RHS_repeat; pfam05593 1005048000198 RHS Repeat; Region: RHS_repeat; pfam05593 1005048000199 RHS Repeat; Region: RHS_repeat; pfam05593 1005048000200 RHS Repeat; Region: RHS_repeat; pfam05593 1005048000201 RHS Repeat; Region: RHS_repeat; pfam05593 1005048000202 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1005048000203 RHS protein; Region: RHS; pfam03527 1005048000204 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1005048000205 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1005048000206 Clp amino terminal domain; Region: Clp_N; pfam02861 1005048000207 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 1005048000208 Walker A motif; other site 1005048000209 ATP binding site [chemical binding]; other site 1005048000210 Walker B motif; other site 1005048000211 arginine finger; other site 1005048000212 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 1005048000213 Walker A motif; other site 1005048000214 ATP binding site [chemical binding]; other site 1005048000215 Walker B motif; other site 1005048000216 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005048000217 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1005048000218 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1005048000219 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1005048000220 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1005048000221 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1005048000222 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1005048000223 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1005048000224 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1005048000225 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1005048000226 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 1005048000227 TPR motif; other site 1005048000228 binding surface 1005048000229 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 1005048000230 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1005048000231 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1005048000232 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1005048000233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048000234 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048000235 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048000236 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048000237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1005048000238 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_2; cd07253 1005048000239 dimer interface [polypeptide binding]; other site 1005048000240 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048000241 metal binding site [ion binding]; metal-binding site 1005048000242 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1005048000243 putative active site [active] 1005048000244 putative catalytic site [active] 1005048000245 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 1005048000246 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1005048000247 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1005048000248 Right handed beta helix region; Region: Beta_helix; pfam13229 1005048000249 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 1005048000250 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048000251 active site 1005048000252 catalytic tetrad [active] 1005048000253 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1005048000254 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048000255 active site 1005048000256 HIGH motif; other site 1005048000257 nucleotide binding site [chemical binding]; other site 1005048000258 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048000259 active site 1005048000260 KMSKS motif; other site 1005048000261 This DALR domain is found in cysteinyl-tRNA-synthetases; Region: DALR_2; smart00840 1005048000262 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1005048000263 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1005048000264 tetrameric interface [polypeptide binding]; other site 1005048000265 NAD binding site [chemical binding]; other site 1005048000266 catalytic residues [active] 1005048000267 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1005048000268 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 1005048000269 inhibitor-cofactor binding pocket; inhibition site 1005048000270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000271 catalytic residue [active] 1005048000272 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1005048000273 active site 1 [active] 1005048000274 dimer interface [polypeptide binding]; other site 1005048000275 hexamer interface [polypeptide binding]; other site 1005048000276 active site 2 [active] 1005048000277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000278 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1005048000279 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048000280 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048000281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000283 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 1005048000284 dimerization interface [polypeptide binding]; other site 1005048000285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000286 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048000287 NAD(P) binding site [chemical binding]; other site 1005048000288 active site 1005048000289 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048000290 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048000291 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1005048000292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000293 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1005048000294 NAD(P) binding site [chemical binding]; other site 1005048000295 active site 1005048000296 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 1005048000297 IHF dimer interface [polypeptide binding]; other site 1005048000298 IHF - DNA interface [nucleotide binding]; other site 1005048000299 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1005048000300 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 1005048000301 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048000302 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048000303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048000304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048000305 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1005048000306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000307 NAD(P) binding site [chemical binding]; other site 1005048000308 active site 1005048000309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000311 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 1005048000312 putative effector binding pocket; other site 1005048000313 dimerization interface [polypeptide binding]; other site 1005048000314 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 1005048000315 non-specific DNA binding site [nucleotide binding]; other site 1005048000316 salt bridge; other site 1005048000317 sequence-specific DNA binding site [nucleotide binding]; other site 1005048000318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 1005048000319 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 1005048000320 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1005048000321 catalytic triad [active] 1005048000322 conserved cis-peptide bond; other site 1005048000323 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1005048000324 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1005048000325 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1005048000326 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1005048000327 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1005048000328 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048000329 catalytic residue [active] 1005048000330 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048000331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000332 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048000333 dimerization interface [polypeptide binding]; other site 1005048000334 substrate binding pocket [chemical binding]; other site 1005048000335 DTW domain; Region: DTW; cl01221 1005048000336 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1005048000337 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 1005048000338 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 1005048000339 HSP70 interaction site [polypeptide binding]; other site 1005048000340 aminotransferase; Validated; Region: PRK08175 1005048000341 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 1005048000342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000343 homodimer interface [polypeptide binding]; other site 1005048000344 catalytic residue [active] 1005048000345 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1005048000346 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1005048000347 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; cd00060 1005048000348 phosphopeptide binding site; other site 1005048000349 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 1005048000350 active site 1005048000351 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1005048000352 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1005048000353 active site 1005048000354 ATP binding site [chemical binding]; other site 1005048000355 substrate binding site [chemical binding]; other site 1005048000356 activation loop (A-loop); other site 1005048000357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000359 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 1005048000360 putative effector binding pocket; other site 1005048000361 dimerization interface [polypeptide binding]; other site 1005048000362 Amidohydrolase; Region: Amidohydro_2; pfam04909 1005048000363 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 1005048000364 active site 1005048000365 catalytic triad [active] 1005048000366 oxyanion hole [active] 1005048000367 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048000368 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 1005048000369 active site 1005048000370 FMN binding site [chemical binding]; other site 1005048000371 2,4-decadienoyl-CoA binding site; other site 1005048000372 catalytic residue [active] 1005048000373 4Fe-4S cluster binding site [ion binding]; other site 1005048000374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048000375 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1005048000376 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048000377 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 1005048000378 dimerization interface [polypeptide binding]; other site 1005048000379 ligand binding site [chemical binding]; other site 1005048000380 Predicted transcriptional regulator [Transcription]; Region: COG2378 1005048000381 HTH domain; Region: HTH_11; pfam08279 1005048000382 WYL domain; Region: WYL; pfam13280 1005048000383 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048000384 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 1005048000385 C-terminal domain interface [polypeptide binding]; other site 1005048000386 GSH binding site (G-site) [chemical binding]; other site 1005048000387 dimer interface [polypeptide binding]; other site 1005048000388 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1005048000389 N-terminal domain interface [polypeptide binding]; other site 1005048000390 dimer interface [polypeptide binding]; other site 1005048000391 substrate binding pocket (H-site) [chemical binding]; other site 1005048000392 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 1005048000393 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1005048000394 TrkA-C domain; Region: TrkA_C; pfam02080 1005048000395 TrkA-C domain; Region: TrkA_C; pfam02080 1005048000396 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1005048000397 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 1005048000398 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 1005048000399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000400 homodimer interface [polypeptide binding]; other site 1005048000401 catalytic residue [active] 1005048000402 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1005048000403 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1005048000404 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1005048000405 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1005048000406 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1005048000407 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1005048000408 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048000409 putative C-terminal domain interface [polypeptide binding]; other site 1005048000410 putative GSH binding site (G-site) [chemical binding]; other site 1005048000411 putative dimer interface [polypeptide binding]; other site 1005048000412 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1005048000413 putative N-terminal domain interface [polypeptide binding]; other site 1005048000414 putative dimer interface [polypeptide binding]; other site 1005048000415 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048000416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048000417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048000418 MarR family; Region: MarR; pfam01047 1005048000419 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1005048000420 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 1005048000421 DNA binding residues [nucleotide binding] 1005048000422 dimerization interface [polypeptide binding]; other site 1005048000423 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 1005048000424 active site 1005048000425 phosphorylation site [posttranslational modification] 1005048000426 intermolecular recognition site; other site 1005048000427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048000428 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 1005048000429 dimer interface [polypeptide binding]; other site 1005048000430 phosphorylation site [posttranslational modification] 1005048000431 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 1005048000432 ATP binding site [chemical binding]; other site 1005048000433 Mg2+ binding site [ion binding]; other site 1005048000434 G-X-G motif; other site 1005048000435 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 1005048000436 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1005048000437 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048000438 catalytic residue [active] 1005048000439 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 1005048000440 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1005048000441 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005048000442 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005048000443 Coenzyme A transferase; Region: CoA_trans; cl17247 1005048000444 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1005048000445 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1005048000446 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 1005048000447 dimer interface [polypeptide binding]; other site 1005048000448 active site 1005048000449 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 1005048000450 catalytic triad [active] 1005048000451 conserved cis-peptide bond; other site 1005048000452 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048000453 ProQ/FINO family; Region: ProQ; smart00945 1005048000454 Predicted transcriptional regulator [Transcription]; Region: COG2378 1005048000455 HTH domain; Region: HTH_11; pfam08279 1005048000456 WYL domain; Region: WYL; pfam13280 1005048000457 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048000458 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1005048000459 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; cl17904 1005048000460 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1005048000461 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048000462 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1005048000463 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1005048000464 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 1005048000465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1005048000466 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048000467 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048000468 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1005048000469 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 1005048000470 [4Fe-4S] binding site [ion binding]; other site 1005048000471 molybdopterin cofactor binding site; other site 1005048000472 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 1005048000473 molybdopterin cofactor binding site; other site 1005048000474 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1005048000475 Trehalase; Region: Trehalase; cl17346 1005048000476 trehalase; Provisional; Region: treF; PRK13270 1005048000477 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005048000478 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 1005048000479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1005048000480 SnoaL-like domain; Region: SnoaL_2; pfam12680 1005048000481 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 1005048000482 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1005048000483 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1005048000484 active site 1005048000485 Zn binding site [ion binding]; other site 1005048000486 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 1005048000487 active site 1005048000488 Zn binding site [ion binding]; other site 1005048000489 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1005048000490 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1005048000491 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 1005048000492 Moco binding site; other site 1005048000493 metal coordination site [ion binding]; other site 1005048000494 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1005048000495 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1005048000496 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 1005048000497 active site 1005048000498 phosphorylation site [posttranslational modification] 1005048000499 intermolecular recognition site; other site 1005048000500 dimerization interface [polypeptide binding]; other site 1005048000501 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 1005048000502 DNA binding site [nucleotide binding] 1005048000503 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1005048000504 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 1005048000505 dimerization interface [polypeptide binding]; other site 1005048000506 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 1005048000507 dimer interface [polypeptide binding]; other site 1005048000508 phosphorylation site [posttranslational modification] 1005048000509 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 1005048000510 ATP binding site [chemical binding]; other site 1005048000511 Mg2+ binding site [ion binding]; other site 1005048000512 G-X-G motif; other site 1005048000513 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1005048000514 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 1005048000515 substrate binding pocket [chemical binding]; other site 1005048000516 membrane-bound complex binding site; other site 1005048000517 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1005048000518 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1005048000519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048000520 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 1005048000521 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1005048000522 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 1005048000523 DNA binding site [nucleotide binding] 1005048000524 active site 1005048000525 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1005048000526 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 1005048000527 catalytic loop [active] 1005048000528 iron binding site [ion binding]; other site 1005048000529 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1005048000530 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048000531 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1005048000532 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1005048000533 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048000534 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048000535 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048000536 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 1005048000537 N-terminal plug; other site 1005048000538 ligand-binding site [chemical binding]; other site 1005048000539 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1005048000540 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1005048000541 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1005048000542 NAD binding site [chemical binding]; other site 1005048000543 Phe binding site; other site 1005048000544 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1005048000545 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1005048000546 putative active site [active] 1005048000547 homotetrameric interface [polypeptide binding]; other site 1005048000548 metal binding site [ion binding]; metal-binding site 1005048000549 helicase 45; Provisional; Region: PTZ00424 1005048000550 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 1005048000551 ATP binding site [chemical binding]; other site 1005048000552 Mg++ binding site [ion binding]; other site 1005048000553 motif III; other site 1005048000554 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 1005048000555 nucleotide binding region [chemical binding]; other site 1005048000556 ATP-binding site [chemical binding]; other site 1005048000557 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1005048000558 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 1005048000559 ATP binding site [chemical binding]; other site 1005048000560 putative Mg++ binding site [ion binding]; other site 1005048000561 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 1005048000562 nucleotide binding region [chemical binding]; other site 1005048000563 ATP-binding site [chemical binding]; other site 1005048000564 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1005048000565 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1005048000566 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048000567 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1005048000568 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048000569 Glycosyl hydrolases related to GH101 family; Region: GHL; pfam11308 1005048000570 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1005048000571 Sulfatase; Region: Sulfatase; cl17466 1005048000572 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1005048000573 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048000574 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1005048000575 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048000576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048000577 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1005048000578 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048000579 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1005048000580 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1005048000581 NAD(P) binding site [chemical binding]; other site 1005048000582 catalytic residues [active] 1005048000583 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1005048000584 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1005048000585 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1005048000586 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1005048000587 SnoaL-like domain; Region: SnoaL_2; pfam12680 1005048000588 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048000589 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 1005048000590 non-specific DNA binding site [nucleotide binding]; other site 1005048000591 salt bridge; other site 1005048000592 sequence-specific DNA binding site [nucleotide binding]; other site 1005048000593 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1005048000594 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1005048000595 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 1005048000596 substrate binding pocket [chemical binding]; other site 1005048000597 membrane-bound complex binding site; other site 1005048000598 hinge residues; other site 1005048000599 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 1005048000600 active site 1005048000601 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1005048000602 active site 1005048000603 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048000604 TAP-like protein; Region: Abhydrolase_4; pfam08386 1005048000605 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048000606 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 1005048000607 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048000608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048000609 DNA-binding site [nucleotide binding]; DNA binding site 1005048000610 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005048000611 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1005048000612 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048000613 Walker A/P-loop; other site 1005048000614 ATP binding site [chemical binding]; other site 1005048000615 Q-loop/lid; other site 1005048000616 ABC transporter signature motif; other site 1005048000617 Walker B; other site 1005048000618 D-loop; other site 1005048000619 H-loop/switch region; other site 1005048000620 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048000621 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048000622 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1005048000623 TM-ABC transporter signature motif; other site 1005048000624 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1005048000625 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048000626 TM-ABC transporter signature motif; other site 1005048000627 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1005048000628 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1005048000629 putative ligand binding site [chemical binding]; other site 1005048000630 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1005048000631 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1005048000632 dimer interface [polypeptide binding]; other site 1005048000633 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1005048000634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005048000635 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005048000636 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048000637 extended (e) SDRs; Region: SDR_e; cd08946 1005048000638 NAD(P) binding site [chemical binding]; other site 1005048000639 active site 1005048000640 substrate binding site [chemical binding]; other site 1005048000641 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1005048000642 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1005048000643 dimer interface [polypeptide binding]; other site 1005048000644 NADP binding site [chemical binding]; other site 1005048000645 catalytic residues [active] 1005048000646 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1005048000647 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1005048000648 putative active site [active] 1005048000649 catalytic residue [active] 1005048000650 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048000651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048000652 DNA-binding site [nucleotide binding]; DNA binding site 1005048000653 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005048000654 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 1005048000655 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048000656 putative substrate translocation pore; other site 1005048000657 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 1005048000658 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1005048000659 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1005048000660 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1005048000661 6-phosphogluconolactonase; Provisional; Region: PRK11028 1005048000662 Protein of unknown function (DUF4243); Region: DUF4243; pfam14027 1005048000663 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 1005048000664 dimer interface [polypeptide binding]; other site 1005048000665 phosphorylation site [posttranslational modification] 1005048000666 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 1005048000667 ATP binding site [chemical binding]; other site 1005048000668 Mg2+ binding site [ion binding]; other site 1005048000669 G-X-G motif; other site 1005048000670 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048000671 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 1005048000672 active site 1005048000673 phosphorylation site [posttranslational modification] 1005048000674 intermolecular recognition site; other site 1005048000675 dimerization interface [polypeptide binding]; other site 1005048000676 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 1005048000677 DNA binding site [nucleotide binding] 1005048000678 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048000679 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 1005048000680 N-terminal plug; other site 1005048000681 ligand-binding site [chemical binding]; other site 1005048000682 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1005048000683 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1005048000684 active site 1005048000685 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 1005048000686 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1005048000687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000689 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1005048000690 putative effector binding pocket; other site 1005048000691 putative dimerization interface [polypeptide binding]; other site 1005048000692 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048000693 Coenzyme A binding pocket [chemical binding]; other site 1005048000694 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1005048000695 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 1005048000696 protein binding site [polypeptide binding]; other site 1005048000697 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1005048000698 Catalytic dyad [active] 1005048000699 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1005048000700 Condensation domain; Region: Condensation; pfam00668 1005048000701 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048000702 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048000703 acyl-activating enzyme (AAE) consensus motif; other site 1005048000704 AMP binding site [chemical binding]; other site 1005048000705 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048000706 Condensation domain; Region: Condensation; pfam00668 1005048000707 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048000708 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048000709 acyl-activating enzyme (AAE) consensus motif; other site 1005048000710 AMP binding site [chemical binding]; other site 1005048000711 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048000712 Condensation domain; Region: Condensation; pfam00668 1005048000713 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1005048000714 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048000715 acyl-activating enzyme (AAE) consensus motif; other site 1005048000716 AMP binding site [chemical binding]; other site 1005048000717 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048000718 Condensation domain; Region: Condensation; pfam00668 1005048000719 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048000720 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048000721 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048000722 acyl-activating enzyme (AAE) consensus motif; other site 1005048000723 AMP binding site [chemical binding]; other site 1005048000724 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048000725 Condensation domain; Region: Condensation; pfam00668 1005048000726 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048000727 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048000728 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 1005048000729 acyl-activating enzyme (AAE) consensus motif; other site 1005048000730 AMP binding site [chemical binding]; other site 1005048000731 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048000732 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1005048000733 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 1005048000734 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048000735 putative substrate translocation pore; other site 1005048000736 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1005048000737 peptidase domain interface [polypeptide binding]; other site 1005048000738 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1005048000739 active site 1005048000740 catalytic triad [active] 1005048000741 calcium binding site [ion binding]; other site 1005048000742 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1005048000743 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1005048000744 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1005048000745 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1005048000746 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1005048000747 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1005048000748 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1005048000749 DctM-like transporters; Region: DctM; pfam06808 1005048000750 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005048000751 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1005048000752 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 1005048000753 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048000754 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048000755 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1005048000756 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 1005048000757 active site 1005048000758 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1005048000759 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048000760 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 1005048000761 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005048000762 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 1005048000763 putative substrate translocation pore; other site 1005048000764 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048000765 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 1005048000766 substrate binding pocket [chemical binding]; other site 1005048000767 membrane-bound complex binding site; other site 1005048000768 hinge residues; other site 1005048000769 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1005048000770 active site 1005048000771 metal binding site [ion binding]; metal-binding site 1005048000772 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 1005048000773 putative active site [active] 1005048000774 putative metal binding site [ion binding]; other site 1005048000775 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1005048000776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1005048000777 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1005048000778 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1005048000779 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1005048000780 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1005048000781 cyanate hydratase; Validated; Region: PRK02866 1005048000782 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1005048000783 oligomer interface [polypeptide binding]; other site 1005048000784 active site 1005048000785 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048000786 Putative amidotransferase; Region: DUF4066; pfam13278 1005048000787 conserved cys residue [active] 1005048000788 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1005048000789 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1005048000790 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1005048000791 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1005048000792 putative hydrophobic ligand binding site [chemical binding]; other site 1005048000793 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 1005048000794 dimerization interface [polypeptide binding]; other site 1005048000795 putative DNA binding site [nucleotide binding]; other site 1005048000796 putative Zn2+ binding site [ion binding]; other site 1005048000797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000798 NmrA-like family; Region: NmrA; pfam05368 1005048000799 NAD(P) binding site [chemical binding]; other site 1005048000800 active site 1005048000801 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1005048000802 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1005048000803 putative NAD(P) binding site [chemical binding]; other site 1005048000804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000806 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 1005048000807 putative effector binding pocket; other site 1005048000808 dimerization interface [polypeptide binding]; other site 1005048000809 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 1005048000810 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1005048000811 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1005048000812 AAA ATPase domain; Region: AAA_16; pfam13191 1005048000813 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005048000814 trimer interface [polypeptide binding]; other site 1005048000815 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048000816 trimer interface [polypeptide binding]; other site 1005048000817 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1005048000818 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1005048000819 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048000820 ligand binding site [chemical binding]; other site 1005048000821 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1005048000822 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 1005048000823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000825 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 1005048000826 putative effector binding pocket; other site 1005048000827 dimerization interface [polypeptide binding]; other site 1005048000828 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1005048000829 Beta-lactamase; Region: Beta-lactamase; pfam00144 1005048000830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000831 NmrA-like family; Region: NmrA; pfam05368 1005048000832 NAD(P) binding site [chemical binding]; other site 1005048000833 active site 1005048000834 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 1005048000835 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048000836 active site 1005048000837 catalytic tetrad [active] 1005048000838 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1005048000839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000841 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1005048000842 dimerization interface [polypeptide binding]; other site 1005048000843 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005048000844 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048000845 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048000846 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048000847 DNA binding site [nucleotide binding] 1005048000848 domain linker motif; other site 1005048000849 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1005048000850 dimerization interface [polypeptide binding]; other site 1005048000851 ligand binding site [chemical binding]; other site 1005048000852 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1005048000853 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005048000854 Walker A/P-loop; other site 1005048000855 ATP binding site [chemical binding]; other site 1005048000856 Q-loop/lid; other site 1005048000857 ABC transporter signature motif; other site 1005048000858 Walker B; other site 1005048000859 D-loop; other site 1005048000860 H-loop/switch region; other site 1005048000861 TOBE domain; Region: TOBE_2; pfam08402 1005048000862 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1005048000863 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1005048000864 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1005048000865 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048000866 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005048000867 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1005048000868 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 1005048000869 dimer interface [polypeptide binding]; other site 1005048000870 conserved gate region; other site 1005048000871 putative PBP binding loops; other site 1005048000872 ABC-ATPase subunit interface; other site 1005048000873 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048000874 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 1005048000875 dimer interface [polypeptide binding]; other site 1005048000876 conserved gate region; other site 1005048000877 putative PBP binding loops; other site 1005048000878 ABC-ATPase subunit interface; other site 1005048000879 short chain dehydrogenase; Provisional; Region: PRK06701 1005048000880 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1005048000881 NAD binding site [chemical binding]; other site 1005048000882 metal binding site [ion binding]; metal-binding site 1005048000883 active site 1005048000884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1005048000885 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1005048000886 PRC-barrel domain; Region: PRC; pfam05239 1005048000887 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005048000888 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1005048000889 short chain dehydrogenase; Provisional; Region: PRK06500 1005048000890 classical (c) SDRs; Region: SDR_c; cd05233 1005048000891 NAD(P) binding site [chemical binding]; other site 1005048000892 active site 1005048000893 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1005048000894 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1005048000895 glutathionine S-transferase; Provisional; Region: PRK10542 1005048000896 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1005048000897 C-terminal domain interface [polypeptide binding]; other site 1005048000898 GSH binding site (G-site) [chemical binding]; other site 1005048000899 dimer interface [polypeptide binding]; other site 1005048000900 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1005048000901 dimer interface [polypeptide binding]; other site 1005048000902 N-terminal domain interface [polypeptide binding]; other site 1005048000903 substrate binding pocket (H-site) [chemical binding]; other site 1005048000904 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005048000905 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 1005048000906 dimerization interface [polypeptide binding]; other site 1005048000907 putative DNA binding site [nucleotide binding]; other site 1005048000908 putative Zn2+ binding site [ion binding]; other site 1005048000909 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048000910 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 1005048000911 putative DNA binding site [nucleotide binding]; other site 1005048000912 putative Zn2+ binding site [ion binding]; other site 1005048000913 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048000914 hypothetical protein; Provisional; Region: PRK05965 1005048000915 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 1005048000916 inhibitor-cofactor binding pocket; inhibition site 1005048000917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000918 catalytic residue [active] 1005048000919 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1005048000920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048000921 succinic semialdehyde dehydrogenase; Region: PLN02278 1005048000922 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1005048000923 tetramerization interface [polypeptide binding]; other site 1005048000924 NAD(P) binding site [chemical binding]; other site 1005048000925 catalytic residues [active] 1005048000926 tartrate dehydrogenase; Region: TTC; TIGR02089 1005048000927 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1005048000928 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1005048000929 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1005048000930 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1005048000931 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1005048000932 putative ligand binding site [chemical binding]; other site 1005048000933 NAD binding site [chemical binding]; other site 1005048000934 dimerization interface [polypeptide binding]; other site 1005048000935 catalytic site [active] 1005048000936 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1005048000937 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1005048000938 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 1005048000939 motif II; other site 1005048000940 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_17; cd08503 1005048000941 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048000942 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1005048000943 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 1005048000944 dimer interface [polypeptide binding]; other site 1005048000945 conserved gate region; other site 1005048000946 putative PBP binding loops; other site 1005048000947 ABC-ATPase subunit interface; other site 1005048000948 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1005048000949 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1005048000950 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 1005048000951 dimer interface [polypeptide binding]; other site 1005048000952 conserved gate region; other site 1005048000953 ABC-ATPase subunit interface; other site 1005048000954 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1005048000955 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048000956 Walker A/P-loop; other site 1005048000957 ATP binding site [chemical binding]; other site 1005048000958 Q-loop/lid; other site 1005048000959 ABC transporter signature motif; other site 1005048000960 Walker B; other site 1005048000961 D-loop; other site 1005048000962 H-loop/switch region; other site 1005048000963 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048000964 Walker A/P-loop; other site 1005048000965 ATP binding site [chemical binding]; other site 1005048000966 Q-loop/lid; other site 1005048000967 ABC transporter signature motif; other site 1005048000968 Walker B; other site 1005048000969 D-loop; other site 1005048000970 H-loop/switch region; other site 1005048000971 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1005048000972 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1005048000973 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1005048000974 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1005048000975 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1005048000976 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005048000977 NAD binding site [chemical binding]; other site 1005048000978 catalytic residues [active] 1005048000979 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1005048000980 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1005048000981 metal binding site [ion binding]; metal-binding site 1005048000982 putative dimer interface [polypeptide binding]; other site 1005048000983 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1005048000984 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1005048000985 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1005048000986 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 1005048000987 tetramer interface [polypeptide binding]; other site 1005048000988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048000989 catalytic residue [active] 1005048000990 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 1005048000991 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1005048000992 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1005048000993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048000994 NAD(P) binding site [chemical binding]; other site 1005048000995 active site 1005048000996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048000997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048000998 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 1005048000999 putative effector binding pocket; other site 1005048001000 dimerization interface [polypeptide binding]; other site 1005048001001 short chain dehydrogenase; Provisional; Region: PRK06197 1005048001002 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1005048001003 putative NAD(P) binding site [chemical binding]; other site 1005048001004 active site 1005048001005 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048001006 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 1005048001007 dimer interface [polypeptide binding]; other site 1005048001008 conserved gate region; other site 1005048001009 putative PBP binding loops; other site 1005048001010 ABC-ATPase subunit interface; other site 1005048001011 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 1005048001012 ABC-ATPase subunit interface; other site 1005048001013 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048001014 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048001015 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048001016 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048001017 DNA binding site [nucleotide binding] 1005048001018 domain linker motif; other site 1005048001019 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1005048001020 dimerization interface [polypeptide binding]; other site 1005048001021 ligand binding site [chemical binding]; other site 1005048001022 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1005048001023 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 1005048001024 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 1005048001025 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1005048001026 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048001027 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048001028 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005048001029 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1005048001030 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1005048001031 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048001032 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048001033 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048001034 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048001035 DNA binding site [nucleotide binding] 1005048001036 domain linker motif; other site 1005048001037 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1005048001038 putative ligand binding site [chemical binding]; other site 1005048001039 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 1005048001040 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048001041 putative di-iron ligands [ion binding]; other site 1005048001042 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1005048001043 [2Fe-2S] cluster binding site [ion binding]; other site 1005048001044 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1005048001045 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048001046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048001047 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1005048001048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001050 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 1005048001051 putative dimerization interface [polypeptide binding]; other site 1005048001052 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1005048001053 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1005048001054 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048001055 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_18; cd08357 1005048001056 putative metal binding site [ion binding]; other site 1005048001057 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1005048001058 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 1005048001059 substrate binding pocket [chemical binding]; other site 1005048001060 membrane-bound complex binding site; other site 1005048001061 hinge residues; other site 1005048001062 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 1005048001063 homotrimer interaction site [polypeptide binding]; other site 1005048001064 putative active site [active] 1005048001065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001067 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1005048001068 putative effector binding pocket; other site 1005048001069 putative dimerization interface [polypeptide binding]; other site 1005048001070 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048001071 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1005048001072 FMN binding site [chemical binding]; other site 1005048001073 active site 1005048001074 substrate binding site [chemical binding]; other site 1005048001075 catalytic residue [active] 1005048001076 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048001077 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1005048001078 active site 1005048001079 FMN binding site [chemical binding]; other site 1005048001080 substrate binding site [chemical binding]; other site 1005048001081 homotetramer interface [polypeptide binding]; other site 1005048001082 catalytic residue [active] 1005048001083 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1005048001084 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1005048001085 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1005048001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001088 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 1005048001089 putative effector binding pocket; other site 1005048001090 dimerization interface [polypeptide binding]; other site 1005048001091 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048001092 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1005048001093 FMN binding site [chemical binding]; other site 1005048001094 active site 1005048001095 substrate binding site [chemical binding]; other site 1005048001096 catalytic residue [active] 1005048001097 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 1005048001098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1005048001099 transcriptional regulator; Provisional; Region: PRK10632 1005048001100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001101 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 1005048001102 putative effector binding pocket; other site 1005048001103 dimerization interface [polypeptide binding]; other site 1005048001104 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1005048001105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048001106 NAD(P) binding site [chemical binding]; other site 1005048001107 active site 1005048001108 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048001109 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 1005048001110 putative ligand binding site [chemical binding]; other site 1005048001111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001113 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1005048001114 putative effector binding pocket; other site 1005048001115 putative dimerization interface [polypeptide binding]; other site 1005048001116 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 1005048001117 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 1005048001118 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048001119 active site 1005048001120 catalytic tetrad [active] 1005048001121 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1005048001122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048001123 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048001124 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1005048001125 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 1005048001126 glutaminase active site [active] 1005048001127 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 1005048001128 dimer interface [polypeptide binding]; other site 1005048001129 active site 1005048001130 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 1005048001131 dimer interface [polypeptide binding]; other site 1005048001132 active site 1005048001133 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 1005048001134 putative DNA binding site [nucleotide binding]; other site 1005048001135 dimerization interface [polypeptide binding]; other site 1005048001136 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048001137 putative Zn2+ binding site [ion binding]; other site 1005048001138 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048001139 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1005048001140 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1005048001141 Substrate binding site; other site 1005048001142 Mg++ binding site; other site 1005048001143 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 1005048001144 active site 1005048001145 substrate binding site [chemical binding]; other site 1005048001146 CoA binding site [chemical binding]; other site 1005048001147 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1005048001148 active site 1005048001149 Zn binding site [ion binding]; other site 1005048001150 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048001151 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 1005048001152 trimer interface [polypeptide binding]; other site 1005048001153 eyelet of channel; other site 1005048001154 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1005048001155 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1005048001156 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1005048001157 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 1005048001158 Ligand Binding Site [chemical binding]; other site 1005048001159 Dihydroneopterin aldolase; Region: FolB; smart00905 1005048001160 active site 1005048001161 short chain dehydrogenase; Provisional; Region: PRK09134 1005048001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048001163 NAD(P) binding site [chemical binding]; other site 1005048001164 active site 1005048001165 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1005048001166 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1005048001167 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005048001168 ArsC family; Region: ArsC; pfam03960 1005048001169 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1005048001170 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1005048001171 TrkA-N domain; Region: TrkA_N; pfam02254 1005048001172 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005048001173 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048001174 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1005048001175 Peptidase C26; Region: Peptidase_C26; pfam07722 1005048001176 catalytic triad [active] 1005048001177 elongation factor Tu; Reviewed; Region: PRK00049 1005048001178 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1005048001179 G1 box; other site 1005048001180 GEF interaction site [polypeptide binding]; other site 1005048001181 GTP/Mg2+ binding site [chemical binding]; other site 1005048001182 Switch I region; other site 1005048001183 G2 box; other site 1005048001184 G3 box; other site 1005048001185 Switch II region; other site 1005048001186 G4 box; other site 1005048001187 G5 box; other site 1005048001188 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 1005048001189 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 1005048001190 Antibiotic Binding Site [chemical binding]; other site 1005048001191 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1005048001192 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1005048001193 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1005048001194 putative homodimer interface [polypeptide binding]; other site 1005048001195 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1005048001196 heterodimer interface [polypeptide binding]; other site 1005048001197 homodimer interface [polypeptide binding]; other site 1005048001198 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1005048001199 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 1005048001200 23S rRNA interface [nucleotide binding]; other site 1005048001201 L7/L12 interface [polypeptide binding]; other site 1005048001202 putative thiostrepton binding site; other site 1005048001203 L25 interface [polypeptide binding]; other site 1005048001204 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 1005048001205 mRNA/rRNA interface [nucleotide binding]; other site 1005048001206 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 1005048001207 23S rRNA interface [nucleotide binding]; other site 1005048001208 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1005048001209 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 1005048001210 peripheral dimer interface [polypeptide binding]; other site 1005048001211 core dimer interface [polypeptide binding]; other site 1005048001212 L10 interface [polypeptide binding]; other site 1005048001213 L11 interface [polypeptide binding]; other site 1005048001214 putative EF-Tu interaction site [polypeptide binding]; other site 1005048001215 putative EF-G interaction site [polypeptide binding]; other site 1005048001216 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1005048001217 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 1005048001218 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 1005048001219 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1005048001220 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 1005048001221 RPB3 interaction site [polypeptide binding]; other site 1005048001222 RPB1 interaction site [polypeptide binding]; other site 1005048001223 RPB11 interaction site [polypeptide binding]; other site 1005048001224 RPB10 interaction site [polypeptide binding]; other site 1005048001225 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1005048001226 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1005048001227 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1005048001228 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1005048001229 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1005048001230 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1005048001231 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1005048001232 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1005048001233 DNA binding site [nucleotide binding] 1005048001234 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1005048001235 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1005048001236 Sulfatase; Region: Sulfatase; pfam00884 1005048001237 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 1005048001238 S17 interaction site [polypeptide binding]; other site 1005048001239 S8 interaction site; other site 1005048001240 16S rRNA interaction site [nucleotide binding]; other site 1005048001241 streptomycin interaction site [chemical binding]; other site 1005048001242 23S rRNA interaction site [nucleotide binding]; other site 1005048001243 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1005048001244 30S ribosomal protein S7; Validated; Region: PRK05302 1005048001245 elongation factor G; Reviewed; Region: PRK00007 1005048001246 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1005048001247 G1 box; other site 1005048001248 putative GEF interaction site [polypeptide binding]; other site 1005048001249 GTP/Mg2+ binding site [chemical binding]; other site 1005048001250 Switch I region; other site 1005048001251 G2 box; other site 1005048001252 G3 box; other site 1005048001253 Switch II region; other site 1005048001254 G4 box; other site 1005048001255 G5 box; other site 1005048001256 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 1005048001257 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 1005048001258 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 1005048001259 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1005048001260 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1005048001261 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1005048001262 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1005048001263 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1005048001264 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1005048001265 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1005048001266 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1005048001267 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 1005048001268 putative translocon binding site; other site 1005048001269 protein-rRNA interface [nucleotide binding]; other site 1005048001270 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1005048001271 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 1005048001272 G-X-X-G motif; other site 1005048001273 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1005048001274 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 1005048001275 23S rRNA interface [nucleotide binding]; other site 1005048001276 5S rRNA interface [nucleotide binding]; other site 1005048001277 putative antibiotic binding site [chemical binding]; other site 1005048001278 L25 interface [polypeptide binding]; other site 1005048001279 L27 interface [polypeptide binding]; other site 1005048001280 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 1005048001281 23S rRNA interface [nucleotide binding]; other site 1005048001282 putative translocon interaction site; other site 1005048001283 signal recognition particle (SRP54) interaction site; other site 1005048001284 L23 interface [polypeptide binding]; other site 1005048001285 trigger factor interaction site; other site 1005048001286 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1005048001287 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1005048001288 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1005048001289 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1005048001290 RNA binding site [nucleotide binding]; other site 1005048001291 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1005048001292 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1005048001293 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1005048001294 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1005048001295 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1005048001296 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1005048001297 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1005048001298 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1005048001299 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 1005048001300 5S rRNA interface [nucleotide binding]; other site 1005048001301 23S rRNA interface [nucleotide binding]; other site 1005048001302 L5 interface [polypeptide binding]; other site 1005048001303 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1005048001304 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1005048001305 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1005048001306 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 1005048001307 23S rRNA binding site [nucleotide binding]; other site 1005048001308 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1005048001309 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1005048001310 SecY translocase; Region: SecY; pfam00344 1005048001311 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 1005048001312 rRNA binding site [nucleotide binding]; other site 1005048001313 predicted 30S ribosome binding site; other site 1005048001314 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1005048001315 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1005048001316 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1005048001317 30S ribosomal protein S11; Validated; Region: PRK05309 1005048001318 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1005048001319 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1005048001320 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 1005048001321 RNA binding surface [nucleotide binding]; other site 1005048001322 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1005048001323 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1005048001324 alphaNTD homodimer interface [polypeptide binding]; other site 1005048001325 alphaNTD - beta interaction site [polypeptide binding]; other site 1005048001326 alphaNTD - beta' interaction site [polypeptide binding]; other site 1005048001327 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1005048001328 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1005048001329 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1005048001330 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1005048001331 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1005048001332 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1005048001333 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 1005048001334 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048001335 DsbD alpha interface [polypeptide binding]; other site 1005048001336 catalytic residues [active] 1005048001337 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1005048001338 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 1005048001339 dimer interface [polypeptide binding]; other site 1005048001340 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1005048001341 catalytic triad [active] 1005048001342 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 1005048001343 oligomer interface [polypeptide binding]; other site 1005048001344 metal binding site [ion binding]; metal-binding site 1005048001345 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1005048001346 putative Cl binding site [ion binding]; other site 1005048001347 aspartate ring; other site 1005048001348 basic sphincter; other site 1005048001349 hydrophobic gate; other site 1005048001350 periplasmic entrance; other site 1005048001351 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1005048001352 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1005048001353 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1005048001354 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 1005048001355 N-terminal plug; other site 1005048001356 ligand-binding site [chemical binding]; other site 1005048001357 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 1005048001358 dimer interface [polypeptide binding]; other site 1005048001359 allosteric magnesium binding site [ion binding]; other site 1005048001360 active site 1005048001361 aspartate-rich active site metal binding site; other site 1005048001362 Schiff base residues; other site 1005048001363 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1005048001364 G1 box; other site 1005048001365 GTP/Mg2+ binding site [chemical binding]; other site 1005048001366 Switch I region; other site 1005048001367 G2 box; other site 1005048001368 G3 box; other site 1005048001369 Switch II region; other site 1005048001370 G4 box; other site 1005048001371 G5 box; other site 1005048001372 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1005048001373 Cytochrome c; Region: Cytochrom_C; cl11414 1005048001374 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1005048001375 ResB-like family; Region: ResB; pfam05140 1005048001376 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1005048001377 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1005048001378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1005048001379 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 1005048001380 motif II; other site 1005048001381 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1005048001382 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 1005048001383 Moco binding site; other site 1005048001384 metal coordination site [ion binding]; other site 1005048001385 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1005048001386 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 1005048001387 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1005048001388 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1005048001389 active site 1005048001390 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048001391 substrate binding site [chemical binding]; other site 1005048001392 catalytic residues [active] 1005048001393 dimer interface [polypeptide binding]; other site 1005048001394 frataxin-like protein; Provisional; Region: cyaY; PRK00446 1005048001395 putative iron binding site [ion binding]; other site 1005048001396 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1005048001397 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1005048001398 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 1005048001399 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1005048001400 Transglycosylase; Region: Transgly; pfam00912 1005048001401 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1005048001402 Cell division protein FtsA; Region: FtsA; cl17206 1005048001403 Competence protein A; Region: Competence_A; pfam11104 1005048001404 Cell division protein FtsA; Region: FtsA; pfam14450 1005048001405 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1005048001406 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1005048001407 Pilus assembly protein, PilO; Region: PilO; pfam04350 1005048001408 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 1005048001409 Pilus assembly protein, PilP; Region: PilP; pfam04351 1005048001410 AMIN domain; Region: AMIN; pfam11741 1005048001411 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1005048001412 Secretin and TonB N terminus short domain; Region: STN; smart00965 1005048001413 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048001414 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005048001415 shikimate kinase; Reviewed; Region: aroK; PRK00131 1005048001416 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 1005048001417 ADP binding site [chemical binding]; other site 1005048001418 magnesium binding site [ion binding]; other site 1005048001419 putative shikimate binding site; other site 1005048001420 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1005048001421 active site 1005048001422 dimer interface [polypeptide binding]; other site 1005048001423 metal binding site [ion binding]; metal-binding site 1005048001424 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1005048001425 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005048001426 Zn2+ binding site [ion binding]; other site 1005048001427 Mg2+ binding site [ion binding]; other site 1005048001428 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1005048001429 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1005048001430 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 1005048001431 30S subunit binding site; other site 1005048001432 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1005048001433 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1005048001434 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1005048001435 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1005048001436 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1005048001437 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1005048001438 Walker A/P-loop; other site 1005048001439 ATP binding site [chemical binding]; other site 1005048001440 Q-loop/lid; other site 1005048001441 ABC transporter signature motif; other site 1005048001442 Walker B; other site 1005048001443 D-loop; other site 1005048001444 H-loop/switch region; other site 1005048001445 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1005048001446 OstA-like protein; Region: OstA; pfam03968 1005048001447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1005048001448 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1005048001449 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 1005048001450 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1005048001451 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1005048001452 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 1005048001453 putative active site [active] 1005048001454 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 1005048001455 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1005048001456 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1005048001457 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1005048001458 TrkA-N domain; Region: TrkA_N; pfam02254 1005048001459 TrkA-C domain; Region: TrkA_C; pfam02080 1005048001460 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1005048001461 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1005048001462 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1005048001463 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1005048001464 hypothetical protein; Provisional; Region: PRK07236 1005048001465 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048001466 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1005048001467 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1005048001468 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1005048001469 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1005048001470 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1005048001471 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 1005048001472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048001473 putative substrate translocation pore; other site 1005048001474 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1005048001475 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 1005048001476 dimer interface [polypeptide binding]; other site 1005048001477 ssDNA binding site [nucleotide binding]; other site 1005048001478 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005048001479 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1005048001480 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1005048001481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1005048001482 Histidine kinase; Region: HisKA_3; pfam07730 1005048001483 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 1005048001484 ATP binding site [chemical binding]; other site 1005048001485 Mg2+ binding site [ion binding]; other site 1005048001486 G-X-G motif; other site 1005048001487 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 1005048001488 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1005048001489 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1005048001490 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 1005048001491 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048001492 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 1005048001493 trimer interface [polypeptide binding]; other site 1005048001494 eyelet of channel; other site 1005048001495 benzoate transport; Region: 2A0115; TIGR00895 1005048001496 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 1005048001497 putative substrate translocation pore; other site 1005048001498 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 1005048001499 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1005048001500 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048001501 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1005048001502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048001503 beta-ketothiolase; Provisional; Region: PRK09051 1005048001504 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 1005048001505 dimer interface [polypeptide binding]; other site 1005048001506 active site 1005048001507 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1005048001508 Peptidase M15; Region: Peptidase_M15_3; cl01194 1005048001509 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048001510 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 1005048001511 C-terminal domain interface [polypeptide binding]; other site 1005048001512 GSH binding site (G-site) [chemical binding]; other site 1005048001513 dimer interface [polypeptide binding]; other site 1005048001514 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1005048001515 dimer interface [polypeptide binding]; other site 1005048001516 N-terminal domain interface [polypeptide binding]; other site 1005048001517 Predicted membrane protein [Function unknown]; Region: COG2860 1005048001518 UPF0126 domain; Region: UPF0126; pfam03458 1005048001519 UPF0126 domain; Region: UPF0126; pfam03458 1005048001520 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1005048001521 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048001522 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 1005048001523 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 1005048001524 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048001525 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048001526 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 1005048001527 putative C-terminal domain interface [polypeptide binding]; other site 1005048001528 putative GSH binding site (G-site) [chemical binding]; other site 1005048001529 putative dimer interface [polypeptide binding]; other site 1005048001530 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 1005048001531 putative N-terminal domain interface [polypeptide binding]; other site 1005048001532 putative dimer interface [polypeptide binding]; other site 1005048001533 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048001534 AMP nucleosidase; Provisional; Region: PRK08292 1005048001535 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1005048001536 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1005048001537 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 1005048001538 putative substrate translocation pore; other site 1005048001539 Nitronate monooxygenase; Region: NMO; pfam03060 1005048001540 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 1005048001541 FMN binding site [chemical binding]; other site 1005048001542 substrate binding site [chemical binding]; other site 1005048001543 putative catalytic residue [active] 1005048001544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001546 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 1005048001547 dimerization interface [polypeptide binding]; other site 1005048001548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1005048001549 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1005048001550 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 1005048001551 active site 1005048001552 dimer interface [polypeptide binding]; other site 1005048001553 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1005048001554 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 1005048001555 active site 1005048001556 FMN binding site [chemical binding]; other site 1005048001557 substrate binding site [chemical binding]; other site 1005048001558 3Fe-4S cluster binding site [ion binding]; other site 1005048001559 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 1005048001560 domain interface; other site 1005048001561 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1005048001562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048001563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048001564 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1005048001565 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1005048001566 Walker A/P-loop; other site 1005048001567 ATP binding site [chemical binding]; other site 1005048001568 Q-loop/lid; other site 1005048001569 ABC transporter signature motif; other site 1005048001570 Walker B; other site 1005048001571 D-loop; other site 1005048001572 H-loop/switch region; other site 1005048001573 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1005048001574 Permease; Region: Permease; pfam02405 1005048001575 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1005048001576 mce related protein; Region: MCE; pfam02470 1005048001577 VacJ like lipoprotein; Region: VacJ; cl01073 1005048001578 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1005048001579 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1005048001580 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005048001581 Walker A/P-loop; other site 1005048001582 ATP binding site [chemical binding]; other site 1005048001583 Q-loop/lid; other site 1005048001584 ABC transporter signature motif; other site 1005048001585 Walker B; other site 1005048001586 D-loop; other site 1005048001587 H-loop/switch region; other site 1005048001588 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1005048001589 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005048001590 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1005048001591 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1005048001592 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 1005048001593 hinge; other site 1005048001594 active site 1005048001595 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1005048001596 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1005048001597 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1005048001598 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 1005048001599 NAD binding site [chemical binding]; other site 1005048001600 dimerization interface [polypeptide binding]; other site 1005048001601 product binding site; other site 1005048001602 substrate binding site [chemical binding]; other site 1005048001603 zinc binding site [ion binding]; other site 1005048001604 catalytic residues [active] 1005048001605 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1005048001606 DNA methylase; Region: N6_N4_Mtase; pfam01555 1005048001607 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1005048001608 putative active site pocket [active] 1005048001609 4-fold oligomerization interface [polypeptide binding]; other site 1005048001610 metal binding residues [ion binding]; metal-binding site 1005048001611 3-fold/trimer interface [polypeptide binding]; other site 1005048001612 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1005048001613 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1005048001614 putative active site [active] 1005048001615 oxyanion strand; other site 1005048001616 catalytic triad [active] 1005048001617 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 1005048001618 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1005048001619 catalytic residues [active] 1005048001620 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 1005048001621 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1005048001622 substrate binding site [chemical binding]; other site 1005048001623 glutamase interaction surface [polypeptide binding]; other site 1005048001624 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1005048001625 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 1005048001626 metal binding site [ion binding]; metal-binding site 1005048001627 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 1005048001628 nucleotide binding site/active site [active] 1005048001629 HIT family signature motif; other site 1005048001630 catalytic residue [active] 1005048001631 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1005048001632 sec-independent translocase; Provisional; Region: tatB; PRK01919 1005048001633 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1005048001634 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1005048001635 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1005048001636 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 1005048001637 protein binding site [polypeptide binding]; other site 1005048001638 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1005048001639 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1005048001640 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 1005048001641 RNA binding surface [nucleotide binding]; other site 1005048001642 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048001643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048001644 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1005048001645 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1005048001646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048001647 active site 1005048001648 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1005048001649 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1005048001650 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1005048001651 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1005048001652 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1005048001653 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 1005048001654 substrate binding site [chemical binding]; other site 1005048001655 oxyanion hole (OAH) forming residues; other site 1005048001656 trimer interface [polypeptide binding]; other site 1005048001657 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 1005048001658 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 1005048001659 dimer interface [polypeptide binding]; other site 1005048001660 active site 1005048001661 enoyl-CoA hydratase; Provisional; Region: PRK06688 1005048001662 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 1005048001663 substrate binding site [chemical binding]; other site 1005048001664 oxyanion hole (OAH) forming residues; other site 1005048001665 trimer interface [polypeptide binding]; other site 1005048001666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048001667 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048001668 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048001669 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048001670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 1005048001671 PGAP1-like protein; Region: PGAP1; pfam07819 1005048001672 Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); Region: DPM3; pfam08285 1005048001673 Entericidin EcnA/B family; Region: Entericidin; pfam08085 1005048001674 MarC family integral membrane protein; Region: MarC; cl00919 1005048001675 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 1005048001676 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1005048001677 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1005048001678 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1005048001679 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1005048001680 Fasciclin domain; Region: Fasciclin; pfam02469 1005048001681 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1005048001682 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 1005048001683 substrate binding pocket [chemical binding]; other site 1005048001684 FAD binding site [chemical binding]; other site 1005048001685 catalytic base [active] 1005048001686 enoyl-CoA hydratase; Provisional; Region: PRK09076 1005048001687 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 1005048001688 substrate binding site [chemical binding]; other site 1005048001689 oxyanion hole (OAH) forming residues; other site 1005048001690 trimer interface [polypeptide binding]; other site 1005048001691 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1005048001692 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 1005048001693 substrate binding site [chemical binding]; other site 1005048001694 oxyanion hole (OAH) forming residues; other site 1005048001695 trimer interface [polypeptide binding]; other site 1005048001696 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1005048001697 DsrE/DsrF-like family; Region: DrsE; cl00672 1005048001698 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 1005048001699 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1005048001700 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 1005048001701 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1005048001702 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048001703 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048001704 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1005048001705 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 1005048001706 Subunit I/III interface [polypeptide binding]; other site 1005048001707 D-pathway; other site 1005048001708 Subunit I/VIIc interface [polypeptide binding]; other site 1005048001709 Subunit I/IV interface [polypeptide binding]; other site 1005048001710 Subunit I/II interface [polypeptide binding]; other site 1005048001711 Low-spin heme (heme a) binding site [chemical binding]; other site 1005048001712 Subunit I/VIIa interface [polypeptide binding]; other site 1005048001713 Subunit I/VIa interface [polypeptide binding]; other site 1005048001714 Dimer interface; other site 1005048001715 Putative water exit pathway; other site 1005048001716 Binuclear center (heme a3/CuB) [ion binding]; other site 1005048001717 K-pathway; other site 1005048001718 Subunit I/Vb interface [polypeptide binding]; other site 1005048001719 Putative proton exit pathway; other site 1005048001720 Subunit I/VIb interface; other site 1005048001721 Subunit I/VIc interface [polypeptide binding]; other site 1005048001722 Electron transfer pathway; other site 1005048001723 Subunit I/VIIIb interface [polypeptide binding]; other site 1005048001724 Subunit I/VIIb interface [polypeptide binding]; other site 1005048001725 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1005048001726 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1005048001727 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 1005048001728 Subunit III/VIIa interface [polypeptide binding]; other site 1005048001729 Phospholipid binding site [chemical binding]; other site 1005048001730 Subunit I/III interface [polypeptide binding]; other site 1005048001731 Subunit III/VIb interface [polypeptide binding]; other site 1005048001732 Subunit III/VIa interface; other site 1005048001733 Subunit III/Vb interface [polypeptide binding]; other site 1005048001734 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1005048001735 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 1005048001736 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1005048001737 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005048001738 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1005048001739 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1005048001740 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1005048001741 UbiA prenyltransferase family; Region: UbiA; pfam01040 1005048001742 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 1005048001743 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048001744 Cu(I) binding site [ion binding]; other site 1005048001745 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 1005048001746 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1005048001747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048001748 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1005048001749 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1005048001750 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048001751 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 1005048001752 DNA binding residues [nucleotide binding] 1005048001753 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048001754 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 1005048001755 active site 1005048001756 phosphorylation site [posttranslational modification] 1005048001757 intermolecular recognition site; other site 1005048001758 dimerization interface [polypeptide binding]; other site 1005048001759 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1005048001760 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1005048001761 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 1005048001762 dimerization interface [polypeptide binding]; other site 1005048001763 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1005048001764 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 1005048001765 dimer interface [polypeptide binding]; other site 1005048001766 phosphorylation site [posttranslational modification] 1005048001767 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 1005048001768 ATP binding site [chemical binding]; other site 1005048001769 Mg2+ binding site [ion binding]; other site 1005048001770 G-X-G motif; other site 1005048001771 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1005048001772 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1005048001773 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 1005048001774 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 1005048001775 S-adenosylmethionine binding site [chemical binding]; other site 1005048001776 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048001777 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1005048001778 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005048001779 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1005048001780 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1005048001781 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048001782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048001783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048001784 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1005048001785 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1005048001786 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005048001787 Walker A/P-loop; other site 1005048001788 ATP binding site [chemical binding]; other site 1005048001789 Q-loop/lid; other site 1005048001790 ABC transporter signature motif; other site 1005048001791 Walker B; other site 1005048001792 D-loop; other site 1005048001793 H-loop/switch region; other site 1005048001794 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1005048001795 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1005048001796 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 1005048001797 P loop; other site 1005048001798 GTP binding site [chemical binding]; other site 1005048001799 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1005048001800 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 1005048001801 S-adenosylmethionine binding site [chemical binding]; other site 1005048001802 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1005048001803 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1005048001804 active site 1005048001805 (T/H)XGH motif; other site 1005048001806 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1005048001807 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1005048001808 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1005048001809 MOSC domain; Region: MOSC; pfam03473 1005048001810 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048001811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001812 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048001813 dimerization interface [polypeptide binding]; other site 1005048001814 substrate binding pocket [chemical binding]; other site 1005048001815 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 1005048001816 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048001817 putative substrate translocation pore; other site 1005048001818 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1005048001819 SxDxEG motif; other site 1005048001820 active site 1005048001821 metal binding site [ion binding]; metal-binding site 1005048001822 homopentamer interface [polypeptide binding]; other site 1005048001823 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1005048001824 homodimer interface [polypeptide binding]; other site 1005048001825 homotetramer interface [polypeptide binding]; other site 1005048001826 active site pocket [active] 1005048001827 cleavage site 1005048001828 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1005048001829 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1005048001830 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 1005048001831 dimer interface [polypeptide binding]; other site 1005048001832 conserved gate region; other site 1005048001833 putative PBP binding loops; other site 1005048001834 ABC-ATPase subunit interface; other site 1005048001835 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1005048001836 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 1005048001837 dimer interface [polypeptide binding]; other site 1005048001838 conserved gate region; other site 1005048001839 putative PBP binding loops; other site 1005048001840 ABC-ATPase subunit interface; other site 1005048001841 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1005048001842 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1005048001843 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1005048001844 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048001845 Walker A/P-loop; other site 1005048001846 ATP binding site [chemical binding]; other site 1005048001847 Q-loop/lid; other site 1005048001848 ABC transporter signature motif; other site 1005048001849 Walker B; other site 1005048001850 D-loop; other site 1005048001851 H-loop/switch region; other site 1005048001852 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005048001853 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048001854 Walker A/P-loop; other site 1005048001855 ATP binding site [chemical binding]; other site 1005048001856 Q-loop/lid; other site 1005048001857 ABC transporter signature motif; other site 1005048001858 Walker B; other site 1005048001859 D-loop; other site 1005048001860 H-loop/switch region; other site 1005048001861 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005048001862 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1005048001863 catalytic nucleophile [active] 1005048001864 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005048001865 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005048001866 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 1005048001867 putative active site [active] 1005048001868 Cupin domain; Region: Cupin_2; cl17218 1005048001869 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1005048001870 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1005048001871 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 1005048001872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048001873 DNA-binding site [nucleotide binding]; DNA binding site 1005048001874 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 1005048001875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048001876 homodimer interface [polypeptide binding]; other site 1005048001877 catalytic residue [active] 1005048001878 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 1005048001879 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1005048001880 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1005048001881 putative molybdopterin cofactor binding site [chemical binding]; other site 1005048001882 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1005048001883 putative molybdopterin cofactor binding site; other site 1005048001884 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048001885 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048001886 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1005048001887 putative effector binding pocket; other site 1005048001888 putative dimerization interface [polypeptide binding]; other site 1005048001889 short chain dehydrogenase; Provisional; Region: PRK12744 1005048001890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048001891 NAD(P) binding site [chemical binding]; other site 1005048001892 active site 1005048001893 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048001894 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 1005048001895 N-terminal plug; other site 1005048001896 ligand-binding site [chemical binding]; other site 1005048001897 GTP-binding protein YchF; Reviewed; Region: PRK09601 1005048001898 YchF GTPase; Region: YchF; cd01900 1005048001899 G1 box; other site 1005048001900 GTP/Mg2+ binding site [chemical binding]; other site 1005048001901 Switch I region; other site 1005048001902 G2 box; other site 1005048001903 Switch II region; other site 1005048001904 G3 box; other site 1005048001905 G4 box; other site 1005048001906 G5 box; other site 1005048001907 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 1005048001908 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1005048001909 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 1005048001910 putative active site [active] 1005048001911 catalytic residue [active] 1005048001912 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1005048001913 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1005048001914 5S rRNA interface [nucleotide binding]; other site 1005048001915 CTC domain interface [polypeptide binding]; other site 1005048001916 L16 interface [polypeptide binding]; other site 1005048001917 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1005048001918 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1005048001919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048001920 active site 1005048001921 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1005048001922 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1005048001923 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1005048001924 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1005048001925 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1005048001926 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 1005048001927 TPR motif; other site 1005048001928 binding surface 1005048001929 TPR repeat; Region: TPR_11; pfam13414 1005048001930 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 1005048001931 binding surface 1005048001932 TPR motif; other site 1005048001933 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1005048001934 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1005048001935 DNA binding site [nucleotide binding] 1005048001936 catalytic residue [active] 1005048001937 H2TH interface [polypeptide binding]; other site 1005048001938 putative catalytic residues [active] 1005048001939 turnover-facilitating residue; other site 1005048001940 intercalation triad [nucleotide binding]; other site 1005048001941 8OG recognition residue [nucleotide binding]; other site 1005048001942 putative reading head residues; other site 1005048001943 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1005048001944 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1005048001945 Dynamin family; Region: Dynamin_N; pfam00350 1005048001946 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1005048001947 G1 box; other site 1005048001948 GTP/Mg2+ binding site [chemical binding]; other site 1005048001949 G2 box; other site 1005048001950 Switch I region; other site 1005048001951 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1005048001952 G3 box; other site 1005048001953 Switch II region; other site 1005048001954 GTP/Mg2+ binding site [chemical binding]; other site 1005048001955 G4 box; other site 1005048001956 G5 box; other site 1005048001957 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1005048001958 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005048001959 minor groove reading motif; other site 1005048001960 helix-hairpin-helix signature motif; other site 1005048001961 substrate binding pocket [chemical binding]; other site 1005048001962 active site 1005048001963 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1005048001964 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 1005048001965 DNA binding and oxoG recognition site [nucleotide binding] 1005048001966 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1005048001967 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1005048001968 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1005048001969 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1005048001970 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1005048001971 Hpr binding site; other site 1005048001972 active site 1005048001973 homohexamer subunit interaction site [polypeptide binding]; other site 1005048001974 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 1005048001975 active site 1005048001976 phosphorylation site [posttranslational modification] 1005048001977 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 1005048001978 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1005048001979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1005048001980 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1005048001981 threonine dehydratase; Reviewed; Region: PRK09224 1005048001982 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 1005048001983 tetramer interface [polypeptide binding]; other site 1005048001984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048001985 catalytic residue [active] 1005048001986 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1005048001987 putative Ile/Val binding site [chemical binding]; other site 1005048001988 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1005048001989 putative Ile/Val binding site [chemical binding]; other site 1005048001990 Predicted membrane protein [Function unknown]; Region: COG1238 1005048001991 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 1005048001992 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048001993 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048001994 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048001995 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1005048001996 Cysteine-rich domain; Region: CCG; pfam02754 1005048001997 Cysteine-rich domain; Region: CCG; pfam02754 1005048001998 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 1005048001999 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1005048002000 nucleotide binding site/active site [active] 1005048002001 HIT family signature motif; other site 1005048002002 catalytic residue [active] 1005048002003 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1005048002004 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1005048002005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048002006 catalytic residue [active] 1005048002007 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1005048002008 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 1005048002009 dimer interface [polypeptide binding]; other site 1005048002010 conserved gate region; other site 1005048002011 putative PBP binding loops; other site 1005048002012 ABC-ATPase subunit interface; other site 1005048002013 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 1005048002014 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1005048002015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048002016 Walker A/P-loop; other site 1005048002017 ATP binding site [chemical binding]; other site 1005048002018 Q-loop/lid; other site 1005048002019 ABC transporter signature motif; other site 1005048002020 Walker B; other site 1005048002021 D-loop; other site 1005048002022 H-loop/switch region; other site 1005048002023 TOBE domain; Region: TOBE_2; pfam08402 1005048002024 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 1005048002025 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1005048002026 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1005048002027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048002028 DNA-binding site [nucleotide binding]; DNA binding site 1005048002029 FCD domain; Region: FCD; pfam07729 1005048002030 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1005048002031 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1005048002032 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 1005048002033 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 1005048002034 NAD(P) binding site [chemical binding]; other site 1005048002035 catalytic residues [active] 1005048002036 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005048002037 Zn2+ binding site [ion binding]; other site 1005048002038 Mg2+ binding site [ion binding]; other site 1005048002039 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1005048002040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1005048002041 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1005048002042 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 1005048002043 S-adenosylmethionine binding site [chemical binding]; other site 1005048002044 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1005048002045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1005048002046 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1005048002047 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1005048002048 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1005048002049 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 1005048002050 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 1005048002051 S-adenosylmethionine binding site [chemical binding]; other site 1005048002052 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005048002053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048002054 Walker A/P-loop; other site 1005048002055 ATP binding site [chemical binding]; other site 1005048002056 Q-loop/lid; other site 1005048002057 ABC transporter signature motif; other site 1005048002058 Walker B; other site 1005048002059 D-loop; other site 1005048002060 H-loop/switch region; other site 1005048002061 TOBE domain; Region: TOBE_2; pfam08402 1005048002062 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 1005048002063 dimer interface [polypeptide binding]; other site 1005048002064 conserved gate region; other site 1005048002065 putative PBP binding loops; other site 1005048002066 ABC-ATPase subunit interface; other site 1005048002067 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005048002068 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 1005048002069 dimer interface [polypeptide binding]; other site 1005048002070 conserved gate region; other site 1005048002071 putative PBP binding loops; other site 1005048002072 ABC-ATPase subunit interface; other site 1005048002073 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1005048002074 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048002075 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1005048002076 Uncharacterized conserved protein [Function unknown]; Region: COG2928 1005048002077 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1005048002078 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 1005048002079 dimer interface [polypeptide binding]; other site 1005048002080 anticodon binding site; other site 1005048002081 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 1005048002082 homodimer interface [polypeptide binding]; other site 1005048002083 motif 1; other site 1005048002084 active site 1005048002085 motif 2; other site 1005048002086 GAD domain; Region: GAD; pfam02938 1005048002087 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 1005048002088 motif 3; other site 1005048002089 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_7; cd04664 1005048002090 nudix motif; other site 1005048002091 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1005048002092 putative catalytic site [active] 1005048002093 putative metal binding site [ion binding]; other site 1005048002094 putative phosphate binding site [ion binding]; other site 1005048002095 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1005048002096 putative active site [active] 1005048002097 catalytic site [active] 1005048002098 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1005048002099 PLD-like domain; Region: PLDc_2; pfam13091 1005048002100 putative active site [active] 1005048002101 catalytic site [active] 1005048002102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1005048002103 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1005048002104 RNA polymerase sigma factor; Provisional; Region: PRK12514 1005048002105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048002106 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 1005048002107 DNA binding residues [nucleotide binding] 1005048002108 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1005048002109 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1005048002110 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1005048002111 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 1005048002112 [2Fe-2S] cluster binding site [ion binding]; other site 1005048002113 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1005048002114 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 1005048002115 Qi binding site; other site 1005048002116 intrachain domain interface; other site 1005048002117 interchain domain interface [polypeptide binding]; other site 1005048002118 heme bH binding site [chemical binding]; other site 1005048002119 heme bL binding site [chemical binding]; other site 1005048002120 Qo binding site; other site 1005048002121 interchain domain interface [polypeptide binding]; other site 1005048002122 intrachain domain interface; other site 1005048002123 Qi binding site; other site 1005048002124 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1005048002125 Qo binding site; other site 1005048002126 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1005048002127 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1005048002128 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1005048002129 C-terminal domain interface [polypeptide binding]; other site 1005048002130 putative GSH binding site (G-site) [chemical binding]; other site 1005048002131 dimer interface [polypeptide binding]; other site 1005048002132 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1005048002133 dimer interface [polypeptide binding]; other site 1005048002134 N-terminal domain interface [polypeptide binding]; other site 1005048002135 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1005048002136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048002137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048002138 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1005048002139 putative effector binding pocket; other site 1005048002140 putative dimerization interface [polypeptide binding]; other site 1005048002141 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 1005048002142 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 1005048002143 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1005048002144 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1005048002145 catalytic residues [active] 1005048002146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 1005048002147 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1005048002148 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1005048002149 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1005048002150 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048002151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048002152 short chain dehydrogenase; Provisional; Region: PRK06180 1005048002153 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1005048002154 NADP binding site [chemical binding]; other site 1005048002155 active site 1005048002156 steroid binding site; other site 1005048002157 Cupin domain; Region: Cupin_2; pfam07883 1005048002158 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1005048002159 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 1005048002160 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1005048002161 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1005048002162 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1005048002163 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048002164 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048002165 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005048002166 MarR family; Region: MarR_2; pfam12802 1005048002167 hypothetical protein; Provisional; Region: PRK07236 1005048002168 FAD binding domain; Region: FAD_binding_3; pfam01494 1005048002169 Tannase and feruloyl esterase; Region: Tannase; pfam07519 1005048002170 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1005048002171 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048002172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048002173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048002174 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 1005048002175 dimerization interface [polypeptide binding]; other site 1005048002176 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048002177 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048002178 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048002179 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048002180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048002181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048002182 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1005048002183 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 1005048002184 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005048002185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048002186 Coenzyme A binding pocket [chemical binding]; other site 1005048002187 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1005048002188 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1005048002189 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1005048002190 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 1005048002191 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1005048002192 dimerization interface [polypeptide binding]; other site 1005048002193 putative active cleft [active] 1005048002194 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048002195 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048002196 DNA binding site [nucleotide binding] 1005048002197 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1005048002198 ligand binding site [chemical binding]; other site 1005048002199 dimerization interface [polypeptide binding]; other site 1005048002200 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1005048002201 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1005048002202 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 1005048002203 active site 1005048002204 ribulose/triose binding site [chemical binding]; other site 1005048002205 phosphate binding site [ion binding]; other site 1005048002206 substrate (anthranilate) binding pocket [chemical binding]; other site 1005048002207 product (indole) binding pocket [chemical binding]; other site 1005048002208 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1005048002209 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1005048002210 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1005048002211 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1005048002212 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1005048002213 glutamine binding [chemical binding]; other site 1005048002214 catalytic triad [active] 1005048002215 anthranilate synthase component I; Provisional; Region: PRK13565 1005048002216 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1005048002217 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1005048002218 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1005048002219 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 1005048002220 motif II; other site 1005048002221 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 1005048002222 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1005048002223 substrate binding site [chemical binding]; other site 1005048002224 hexamer interface [polypeptide binding]; other site 1005048002225 metal binding site [ion binding]; metal-binding site 1005048002226 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1005048002227 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1005048002228 MltA specific insert domain; Region: MltA; smart00925 1005048002229 3D domain; Region: 3D; pfam06725 1005048002230 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 1005048002231 Ligand Binding Site [chemical binding]; other site 1005048002232 enoyl-CoA hydratase; Provisional; Region: PRK05862 1005048002233 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 1005048002234 substrate binding site [chemical binding]; other site 1005048002235 oxyanion hole (OAH) forming residues; other site 1005048002236 trimer interface [polypeptide binding]; other site 1005048002237 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1005048002238 RuvA N terminal domain; Region: RuvA_N; pfam01330 1005048002239 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1005048002240 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1005048002241 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 1005048002242 Walker A motif; other site 1005048002243 ATP binding site [chemical binding]; other site 1005048002244 Walker B motif; other site 1005048002245 arginine finger; other site 1005048002246 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1005048002247 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1005048002248 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1005048002249 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 1005048002250 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1005048002251 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048002252 active site 1005048002253 HIGH motif; other site 1005048002254 nucleotide binding site [chemical binding]; other site 1005048002255 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1005048002256 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1005048002257 active site 1005048002258 KMSKS motif; other site 1005048002259 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1005048002260 tRNA binding surface [nucleotide binding]; other site 1005048002261 anticodon binding site; other site 1005048002262 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1005048002263 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1005048002264 ThiC-associated domain; Region: ThiC-associated; pfam13667 1005048002265 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1005048002266 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 1005048002267 ThiS interaction site; other site 1005048002268 putative active site [active] 1005048002269 tetramer interface [polypeptide binding]; other site 1005048002270 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 1005048002271 dimer interface [polypeptide binding]; other site 1005048002272 substrate binding site [chemical binding]; other site 1005048002273 ATP binding site [chemical binding]; other site 1005048002274 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 1005048002275 thiamine phosphate binding site [chemical binding]; other site 1005048002276 active site 1005048002277 pyrophosphate binding site [ion binding]; other site 1005048002278 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1005048002279 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1005048002280 dimerization interface [polypeptide binding]; other site 1005048002281 DPS ferroxidase diiron center [ion binding]; other site 1005048002282 ion pore; other site 1005048002283 major facilitator superfamily transporter; Provisional; Region: PRK05122 1005048002284 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 1005048002285 putative substrate translocation pore; other site 1005048002286 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1005048002287 Part of AAA domain; Region: AAA_19; pfam13245 1005048002288 Family description; Region: UvrD_C_2; pfam13538 1005048002289 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1005048002290 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1005048002291 putative active site [active] 1005048002292 putative substrate binding site [chemical binding]; other site 1005048002293 ATP binding site [chemical binding]; other site 1005048002294 DNA polymerase I; Provisional; Region: PRK05755 1005048002295 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1005048002296 active site 1005048002297 metal binding site 1 [ion binding]; metal-binding site 1005048002298 putative 5' ssDNA interaction site; other site 1005048002299 metal binding site 3; metal-binding site 1005048002300 metal binding site 2 [ion binding]; metal-binding site 1005048002301 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1005048002302 putative DNA binding site [nucleotide binding]; other site 1005048002303 putative metal binding site [ion binding]; other site 1005048002304 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 1005048002305 active site 1005048002306 catalytic site [active] 1005048002307 substrate binding site [chemical binding]; other site 1005048002308 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1005048002309 active site 1005048002310 DNA binding site [nucleotide binding] 1005048002311 catalytic site [active] 1005048002312 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1005048002313 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1005048002314 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1005048002315 ZIP Zinc transporter; Region: Zip; pfam02535 1005048002316 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1005048002317 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1005048002318 active site residue [active] 1005048002319 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1005048002320 active site residue [active] 1005048002321 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005048002322 EamA-like transporter family; Region: EamA; pfam00892 1005048002323 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1005048002324 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1005048002325 [2Fe-2S] cluster binding site [ion binding]; other site 1005048002326 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1005048002327 alpha subunit interface [polypeptide binding]; other site 1005048002328 active site 1005048002329 substrate binding site [chemical binding]; other site 1005048002330 Fe binding site [ion binding]; other site 1005048002331 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1005048002332 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1005048002333 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1005048002334 substrate binding pocket [chemical binding]; other site 1005048002335 chain length determination region; other site 1005048002336 substrate-Mg2+ binding site; other site 1005048002337 catalytic residues [active] 1005048002338 aspartate-rich region 1; other site 1005048002339 active site lid residues [active] 1005048002340 aspartate-rich region 2; other site 1005048002341 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1005048002342 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 1005048002343 TPP-binding site; other site 1005048002344 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 1005048002345 PYR/PP interface [polypeptide binding]; other site 1005048002346 dimer interface [polypeptide binding]; other site 1005048002347 TPP binding site [chemical binding]; other site 1005048002348 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005048002349 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1005048002350 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1005048002351 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048002352 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048002353 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048002354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048002355 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048002356 dimerization interface [polypeptide binding]; other site 1005048002357 substrate binding pocket [chemical binding]; other site 1005048002358 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1005048002359 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048002360 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1005048002361 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048002362 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1005048002363 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 1005048002364 Cysteine-rich domain; Region: CCG; pfam02754 1005048002365 Cysteine-rich domain; Region: CCG; pfam02754 1005048002366 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048002367 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 1005048002368 trimer interface [polypeptide binding]; other site 1005048002369 eyelet of channel; other site 1005048002370 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 1005048002371 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1005048002372 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 1005048002373 putative active site [active] 1005048002374 putative catalytic site [active] 1005048002375 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 1005048002376 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048002377 putative substrate translocation pore; other site 1005048002378 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1005048002379 active site 1005048002380 catalytic residues [active] 1005048002381 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1005048002382 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1005048002383 active site 1005048002384 tetramer interface [polypeptide binding]; other site 1005048002385 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048002386 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048002387 DNA binding site [nucleotide binding] 1005048002388 domain linker motif; other site 1005048002389 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1005048002390 putative dimerization interface [polypeptide binding]; other site 1005048002391 putative ligand binding site [chemical binding]; other site 1005048002392 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1005048002393 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1005048002394 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005048002395 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1005048002396 glycerol kinase; Provisional; Region: glpK; PRK00047 1005048002397 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1005048002398 N- and C-terminal domain interface [polypeptide binding]; other site 1005048002399 active site 1005048002400 MgATP binding site [chemical binding]; other site 1005048002401 catalytic site [active] 1005048002402 metal binding site [ion binding]; metal-binding site 1005048002403 glycerol binding site [chemical binding]; other site 1005048002404 homotetramer interface [polypeptide binding]; other site 1005048002405 homodimer interface [polypeptide binding]; other site 1005048002406 FBP binding site [chemical binding]; other site 1005048002407 protein IIAGlc interface [polypeptide binding]; other site 1005048002408 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1005048002409 amphipathic channel; other site 1005048002410 Asn-Pro-Ala signature motifs; other site 1005048002411 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 1005048002412 catalytic residues [active] 1005048002413 dimer interface [polypeptide binding]; other site 1005048002414 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1005048002415 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 1005048002416 Walker A motif; other site 1005048002417 ATP binding site [chemical binding]; other site 1005048002418 Walker B motif; other site 1005048002419 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1005048002420 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 1005048002421 Walker A motif; other site 1005048002422 ATP binding site [chemical binding]; other site 1005048002423 Walker B motif; other site 1005048002424 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1005048002425 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048002426 catalytic residue [active] 1005048002427 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1005048002428 pyrroline-5-carboxylate reductase; Region: PLN02688 1005048002429 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1005048002430 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1005048002431 UbiA prenyltransferase family; Region: UbiA; pfam01040 1005048002432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048002433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048002434 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 1005048002435 dimerization interface [polypeptide binding]; other site 1005048002436 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1005048002437 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 1005048002438 generic binding surface II; other site 1005048002439 ssDNA binding site; other site 1005048002440 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 1005048002441 ATP binding site [chemical binding]; other site 1005048002442 putative Mg++ binding site [ion binding]; other site 1005048002443 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 1005048002444 nucleotide binding region [chemical binding]; other site 1005048002445 ATP-binding site [chemical binding]; other site 1005048002446 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1005048002447 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1005048002448 putative DNA binding site [nucleotide binding]; other site 1005048002449 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 1005048002450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1005048002451 Mg2+ binding site [ion binding]; other site 1005048002452 G-X-G motif; other site 1005048002453 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 1005048002454 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1005048002455 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1005048002456 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1005048002457 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1005048002458 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1005048002459 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1005048002460 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1005048002461 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1005048002462 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1005048002463 Protein export membrane protein; Region: SecD_SecF; pfam02355 1005048002464 adenylosuccinate lyase; Provisional; Region: PRK09285 1005048002465 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1005048002466 tetramer interface [polypeptide binding]; other site 1005048002467 active site 1005048002468 putative glutathione S-transferase; Provisional; Region: PRK10357 1005048002469 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1005048002470 putative C-terminal domain interface [polypeptide binding]; other site 1005048002471 putative GSH binding site (G-site) [chemical binding]; other site 1005048002472 putative dimer interface [polypeptide binding]; other site 1005048002473 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1005048002474 dimer interface [polypeptide binding]; other site 1005048002475 N-terminal domain interface [polypeptide binding]; other site 1005048002476 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048002477 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1005048002478 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048002479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048002480 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 1005048002481 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048002482 putative substrate translocation pore; other site 1005048002483 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1005048002484 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 1005048002485 catalytic triad [active] 1005048002486 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048002487 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 1005048002488 substrate binding site [chemical binding]; other site 1005048002489 ATP binding site [chemical binding]; other site 1005048002490 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1005048002491 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1005048002492 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1005048002493 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 1005048002494 S-adenosylmethionine binding site [chemical binding]; other site 1005048002495 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1005048002496 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005048002497 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1005048002498 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1005048002499 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1005048002500 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 1005048002501 carboxyltransferase (CT) interaction site; other site 1005048002502 biotinylation site [posttranslational modification]; other site 1005048002503 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 1005048002504 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1005048002505 active site 1005048002506 trimer interface [polypeptide binding]; other site 1005048002507 dimer interface [polypeptide binding]; other site 1005048002508 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 1005048002509 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048002510 catalytic residues [active] 1005048002511 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1005048002512 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005048002513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048002514 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048002515 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1005048002516 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048002517 Chorismate lyase; Region: Chor_lyase; cl01230 1005048002518 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1005048002519 RNB domain; Region: RNB; pfam00773 1005048002520 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1005048002521 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1005048002522 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1005048002523 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1005048002524 shikimate binding site; other site 1005048002525 NAD(P) binding site [chemical binding]; other site 1005048002526 Transglycosylase; Region: Transgly; cl17702 1005048002527 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1005048002528 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1005048002529 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1005048002530 Cl binding site [ion binding]; other site 1005048002531 oligomer interface [polypeptide binding]; other site 1005048002532 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1005048002533 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 1005048002534 inhibitor-cofactor binding pocket; inhibition site 1005048002535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048002536 catalytic residue [active] 1005048002537 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 1005048002538 substrate binding site [chemical binding]; other site 1005048002539 dimer interface [polypeptide binding]; other site 1005048002540 ATP binding site [chemical binding]; other site 1005048002541 Rubredoxin [Energy production and conversion]; Region: COG1773 1005048002542 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 1005048002543 iron binding site [ion binding]; other site 1005048002544 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048002545 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 1005048002546 active site 1005048002547 phosphorylation site [posttranslational modification] 1005048002548 intermolecular recognition site; other site 1005048002549 dimerization interface [polypeptide binding]; other site 1005048002550 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048002551 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 1005048002552 active site 1005048002553 phosphorylation site [posttranslational modification] 1005048002554 intermolecular recognition site; other site 1005048002555 dimerization interface [polypeptide binding]; other site 1005048002556 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; cl00256 1005048002557 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1005048002558 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1005048002559 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048002560 dimer interface [polypeptide binding]; other site 1005048002561 putative CheW interface [polypeptide binding]; other site 1005048002562 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 1005048002563 putative binding surface; other site 1005048002564 active site 1005048002565 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 1005048002566 putative binding surface; other site 1005048002567 active site 1005048002568 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 1005048002569 putative binding surface; other site 1005048002570 active site 1005048002571 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1005048002572 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1005048002573 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 1005048002574 ATP binding site [chemical binding]; other site 1005048002575 Mg2+ binding site [ion binding]; other site 1005048002576 G-X-G motif; other site 1005048002577 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; cl00256 1005048002578 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048002579 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 1005048002580 active site 1005048002581 phosphorylation site [posttranslational modification] 1005048002582 intermolecular recognition site; other site 1005048002583 dimerization interface [polypeptide binding]; other site 1005048002584 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1005048002585 DNA photolyase; Region: DNA_photolyase; pfam00875 1005048002586 hypothetical protein; Validated; Region: PRK00228 1005048002587 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 1005048002588 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048002589 active site 1005048002590 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1005048002591 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1005048002592 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1005048002593 dihydroorotase; Provisional; Region: PRK07627 1005048002594 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 1005048002595 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 1005048002596 active site 1005048002597 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1005048002598 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1005048002599 putative acyl-acceptor binding pocket; other site 1005048002600 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1005048002601 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1005048002602 active site 1005048002603 metal binding site [ion binding]; metal-binding site 1005048002604 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1005048002605 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1005048002606 NAD binding site [chemical binding]; other site 1005048002607 substrate binding site [chemical binding]; other site 1005048002608 homodimer interface [polypeptide binding]; other site 1005048002609 active site 1005048002610 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1005048002611 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1005048002612 substrate binding site; other site 1005048002613 tetramer interface; other site 1005048002614 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1005048002615 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1005048002616 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1005048002617 NADP binding site [chemical binding]; other site 1005048002618 active site 1005048002619 putative substrate binding site [chemical binding]; other site 1005048002620 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1005048002621 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1005048002622 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048002623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048002624 NAD(P) binding site [chemical binding]; other site 1005048002625 active site 1005048002626 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1005048002627 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1005048002628 NAD(P) binding site [chemical binding]; other site 1005048002629 homodimer interface [polypeptide binding]; other site 1005048002630 substrate binding site [chemical binding]; other site 1005048002631 active site 1005048002632 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1005048002633 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 1005048002634 active site 1005048002635 substrate binding site [chemical binding]; other site 1005048002636 metal binding site [ion binding]; metal-binding site 1005048002637 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1005048002638 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 1005048002639 putative active site [active] 1005048002640 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1005048002641 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1005048002642 G1 box; other site 1005048002643 putative GEF interaction site [polypeptide binding]; other site 1005048002644 GTP/Mg2+ binding site [chemical binding]; other site 1005048002645 Switch I region; other site 1005048002646 G2 box; other site 1005048002647 G3 box; other site 1005048002648 Switch II region; other site 1005048002649 G4 box; other site 1005048002650 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1005048002651 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1005048002652 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1005048002653 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1005048002654 selenocysteine synthase; Provisional; Region: PRK04311 1005048002655 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1005048002656 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1005048002657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048002658 catalytic residue [active] 1005048002659 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1005048002660 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1005048002661 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 1005048002662 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1005048002663 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1005048002664 4Fe-4S binding domain; Region: Fer4; cl02805 1005048002665 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1005048002666 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 1005048002667 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1005048002668 [4Fe-4S] binding site [ion binding]; other site 1005048002669 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 1005048002670 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1005048002671 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 1005048002672 molybdopterin cofactor binding site; other site 1005048002673 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 1005048002674 S-adenosylmethionine binding site [chemical binding]; other site 1005048002675 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1005048002676 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 1005048002677 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048002678 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1005048002679 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1005048002680 Ligand binding site; other site 1005048002681 Putative Catalytic site; other site 1005048002682 DXD motif; other site 1005048002683 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 1005048002684 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1005048002685 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1005048002686 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 1005048002687 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1005048002688 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1005048002689 putative active site [active] 1005048002690 O-Antigen ligase; Region: Wzy_C; pfam04932 1005048002691 UDP-glucose 4-epimerase; Region: PLN02240 1005048002692 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1005048002693 NAD binding site [chemical binding]; other site 1005048002694 homodimer interface [polypeptide binding]; other site 1005048002695 active site 1005048002696 substrate binding site [chemical binding]; other site 1005048002697 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1005048002698 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1005048002699 Protein export membrane protein; Region: SecD_SecF; cl14618 1005048002700 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1005048002701 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048002702 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048002703 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1005048002704 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048002705 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1005048002706 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1005048002707 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 1005048002708 active site residue [active] 1005048002709 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1005048002710 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 1005048002711 S-adenosylmethionine binding site [chemical binding]; other site 1005048002712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048002713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048002714 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1005048002715 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1005048002716 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1005048002717 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1005048002718 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 1005048002719 ATP binding site [chemical binding]; other site 1005048002720 putative Mg++ binding site [ion binding]; other site 1005048002721 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 1005048002722 nucleotide binding region [chemical binding]; other site 1005048002723 ATP-binding site [chemical binding]; other site 1005048002724 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1005048002725 HRDC domain; Region: HRDC; pfam00570 1005048002726 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1005048002727 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048002728 malic enzyme; Reviewed; Region: PRK12862 1005048002729 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 1005048002730 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1005048002731 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1005048002732 putative NAD(P) binding site [chemical binding]; other site 1005048002733 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1005048002734 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1005048002735 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1005048002736 dimer interface [polypeptide binding]; other site 1005048002737 acyl-activating enzyme (AAE) consensus motif; other site 1005048002738 putative active site [active] 1005048002739 AMP binding site [chemical binding]; other site 1005048002740 putative CoA binding site [chemical binding]; other site 1005048002741 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1005048002742 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005048002743 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005048002744 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1005048002745 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1005048002746 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1005048002747 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1005048002748 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 1005048002749 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1005048002750 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005048002751 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 1005048002752 active site 1005048002753 phosphorylation site [posttranslational modification] 1005048002754 dimerization interface [polypeptide binding]; other site 1005048002755 AAA domain; Region: AAA_31; pfam13614 1005048002756 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1005048002757 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1005048002758 ATP binding site [chemical binding]; other site 1005048002759 Walker A motif; other site 1005048002760 hexamer interface [polypeptide binding]; other site 1005048002761 Walker B motif; other site 1005048002762 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1005048002763 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048002764 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1005048002765 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048002766 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 1005048002767 TPR motif; other site 1005048002768 binding surface 1005048002769 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 1005048002770 Predicted membrane protein [Function unknown]; Region: COG4655 1005048002771 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 1005048002772 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1005048002773 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 1005048002774 Walker A motif; other site 1005048002775 ATP binding site [chemical binding]; other site 1005048002776 Walker B motif; other site 1005048002777 arginine finger; other site 1005048002778 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048002779 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1005048002780 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048002781 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 1005048002782 trimer interface [polypeptide binding]; other site 1005048002783 eyelet of channel; other site 1005048002784 SEC-C motif; Region: SEC-C; pfam02810 1005048002785 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1005048002786 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1005048002787 citrate-proton symporter; Provisional; Region: PRK15075 1005048002788 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 1005048002789 putative substrate translocation pore; other site 1005048002790 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1005048002791 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1005048002792 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 1005048002793 RNA binding site [nucleotide binding]; other site 1005048002794 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 1005048002795 multimer interface [polypeptide binding]; other site 1005048002796 Walker A motif; other site 1005048002797 ATP binding site [chemical binding]; other site 1005048002798 Walker B motif; other site 1005048002799 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 1005048002800 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048002801 catalytic residues [active] 1005048002802 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 1005048002803 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1005048002804 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 1005048002805 Family description; Region: UvrD_C_2; pfam13538 1005048002806 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1005048002807 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005048002808 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 1005048002809 dimer interface [polypeptide binding]; other site 1005048002810 conserved gate region; other site 1005048002811 putative PBP binding loops; other site 1005048002812 ABC-ATPase subunit interface; other site 1005048002813 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048002814 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 1005048002815 substrate binding pocket [chemical binding]; other site 1005048002816 membrane-bound complex binding site; other site 1005048002817 hinge residues; other site 1005048002818 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 1005048002819 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048002820 substrate binding pocket [chemical binding]; other site 1005048002821 membrane-bound complex binding site; other site 1005048002822 hinge residues; other site 1005048002823 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 1005048002824 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048002825 substrate binding pocket [chemical binding]; other site 1005048002826 membrane-bound complex binding site; other site 1005048002827 hinge residues; other site 1005048002828 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1005048002829 PBP superfamily domain; Region: PBP_like; pfam12727 1005048002830 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 1005048002831 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048002832 putative substrate translocation pore; other site 1005048002833 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1005048002834 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1005048002835 putative dimer interface [polypeptide binding]; other site 1005048002836 [2Fe-2S] cluster binding site [ion binding]; other site 1005048002837 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1005048002838 putative dimer interface [polypeptide binding]; other site 1005048002839 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1005048002840 SLBB domain; Region: SLBB; pfam10531 1005048002841 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1005048002842 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1005048002843 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 1005048002844 catalytic loop [active] 1005048002845 iron binding site [ion binding]; other site 1005048002846 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1005048002847 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 1005048002848 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1005048002849 [4Fe-4S] binding site [ion binding]; other site 1005048002850 molybdopterin cofactor binding site; other site 1005048002851 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1005048002852 molybdopterin cofactor binding site; other site 1005048002853 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1005048002854 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1005048002855 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1005048002856 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048002857 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005048002858 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1005048002859 putative N-terminal domain interface [polypeptide binding]; other site 1005048002860 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048002861 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1005048002862 Cell division protein ZapA; Region: ZapA; pfam05164 1005048002863 EVE domain; Region: EVE; cl00728 1005048002864 malonyl-CoA synthase; Validated; Region: PRK07514 1005048002865 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 1005048002866 acyl-activating enzyme (AAE) consensus motif; other site 1005048002867 active site 1005048002868 AMP binding site [chemical binding]; other site 1005048002869 CoA binding site [chemical binding]; other site 1005048002870 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1005048002871 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1005048002872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048002873 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 1005048002874 putative dimerization interface [polypeptide binding]; other site 1005048002875 putative substrate binding pocket [chemical binding]; other site 1005048002876 Cytochrome c; Region: Cytochrom_C; cl11414 1005048002877 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048002878 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 1005048002879 dimerization interface [polypeptide binding]; other site 1005048002880 ligand binding site [chemical binding]; other site 1005048002881 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048002882 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 1005048002883 dimerization interface [polypeptide binding]; other site 1005048002884 ligand binding site [chemical binding]; other site 1005048002885 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048002886 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 1005048002887 putative DNA binding site [nucleotide binding]; other site 1005048002888 putative Zn2+ binding site [ion binding]; other site 1005048002889 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048002890 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1005048002891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048002892 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1005048002893 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1005048002894 catalytic residues [active] 1005048002895 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1005048002896 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1005048002897 active site 1005048002898 Zn binding site [ion binding]; other site 1005048002899 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1005048002900 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1005048002901 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1005048002902 homodimer interface [polypeptide binding]; other site 1005048002903 NADP binding site [chemical binding]; other site 1005048002904 substrate binding site [chemical binding]; other site 1005048002905 glutamate--cysteine ligase; Provisional; Region: PRK02107 1005048002906 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1005048002907 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048002908 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048002909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048002910 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1005048002911 NAD(P) binding site [chemical binding]; other site 1005048002912 active site 1005048002913 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1005048002914 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1005048002915 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 1005048002916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048002917 DNA-binding site [nucleotide binding]; DNA binding site 1005048002918 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 1005048002919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048002920 homodimer interface [polypeptide binding]; other site 1005048002921 catalytic residue [active] 1005048002922 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1005048002923 active site 1005048002924 Zn binding site [ion binding]; other site 1005048002925 Regulatory protein YrvL; Region: YrvL; pfam14184 1005048002926 DNA polymerase II; Reviewed; Region: PRK05762 1005048002927 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1005048002928 active site 1005048002929 catalytic site [active] 1005048002930 substrate binding site [chemical binding]; other site 1005048002931 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1005048002932 active site 1005048002933 metal-binding site 1005048002934 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1005048002935 MarR family; Region: MarR; pfam01047 1005048002936 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1005048002937 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 1005048002938 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 1005048002939 dimerization interface [polypeptide binding]; other site 1005048002940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048002941 dimer interface [polypeptide binding]; other site 1005048002942 putative CheW interface [polypeptide binding]; other site 1005048002943 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1005048002944 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 1005048002945 dimerization interface [polypeptide binding]; other site 1005048002946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048002947 dimer interface [polypeptide binding]; other site 1005048002948 putative CheW interface [polypeptide binding]; other site 1005048002949 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1005048002950 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1005048002951 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1005048002952 CheD chemotactic sensory transduction; Region: CheD; cl00810 1005048002953 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1005048002954 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 1005048002955 active site 1005048002956 phosphorylation site [posttranslational modification] 1005048002957 intermolecular recognition site; other site 1005048002958 dimerization interface [polypeptide binding]; other site 1005048002959 CheB methylesterase; Region: CheB_methylest; pfam01339 1005048002960 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1005048002961 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 1005048002962 active site 1005048002963 phosphorylation site [posttranslational modification] 1005048002964 intermolecular recognition site; other site 1005048002965 dimerization interface [polypeptide binding]; other site 1005048002966 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1005048002967 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1005048002968 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1005048002969 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1005048002970 FHIPEP family; Region: FHIPEP; pfam00771 1005048002971 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 1005048002972 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 1005048002973 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 1005048002974 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1005048002975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048002976 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1005048002977 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 1005048002978 Flagellar protein FlhE; Region: FlhE; pfam06366 1005048002979 FlgN protein; Region: FlgN; pfam05130 1005048002980 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1005048002981 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1005048002982 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1005048002983 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048002984 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 1005048002985 non-specific DNA binding site [nucleotide binding]; other site 1005048002986 salt bridge; other site 1005048002987 sequence-specific DNA binding site [nucleotide binding]; other site 1005048002988 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1005048002989 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1005048002990 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1005048002991 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1005048002992 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1005048002993 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1005048002994 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1005048002995 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1005048002996 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1005048002997 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1005048002998 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1005048002999 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1005048003000 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1005048003001 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1005048003002 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1005048003003 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1005048003004 Flagellar L-ring protein; Region: FlgH; cl17277 1005048003005 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1005048003006 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1005048003007 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1005048003008 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1005048003009 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1005048003010 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1005048003011 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1005048003012 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1005048003013 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1005048003014 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1005048003015 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1005048003016 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1005048003017 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1005048003018 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1005048003019 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1005048003020 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1005048003021 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1005048003022 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1005048003023 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1005048003024 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1005048003025 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1005048003026 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1005048003027 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1005048003028 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 1005048003029 Walker A motif/ATP binding site; other site 1005048003030 Walker B motif; other site 1005048003031 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1005048003032 Flagellar assembly protein FliH; Region: FliH; pfam02108 1005048003033 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1005048003034 FliG C-terminal domain; Region: FliG_C; pfam01706 1005048003035 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1005048003036 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1005048003037 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1005048003038 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1005048003039 flagellin; Validated; Region: PRK06819 1005048003040 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1005048003041 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1005048003042 FlaG protein; Region: FlaG; pfam03646 1005048003043 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1005048003044 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1005048003045 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1005048003046 Flagellar protein FliS; Region: FliS; cl00654 1005048003047 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1005048003048 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 1005048003049 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048003050 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 1005048003051 active site 1005048003052 phosphorylation site [posttranslational modification] 1005048003053 intermolecular recognition site; other site 1005048003054 dimerization interface [polypeptide binding]; other site 1005048003055 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 1005048003056 DNA binding residues [nucleotide binding] 1005048003057 dimerization interface [polypeptide binding]; other site 1005048003058 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 1005048003059 putative CheA interaction surface; other site 1005048003060 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1005048003061 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 1005048003062 dimerization interface [polypeptide binding]; other site 1005048003063 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048003064 dimer interface [polypeptide binding]; other site 1005048003065 putative CheW interface [polypeptide binding]; other site 1005048003066 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 1005048003067 dimer interface [polypeptide binding]; other site 1005048003068 phosphorylation site [posttranslational modification] 1005048003069 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 1005048003070 ATP binding site [chemical binding]; other site 1005048003071 Mg2+ binding site [ion binding]; other site 1005048003072 G-X-G motif; other site 1005048003073 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1005048003074 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 1005048003075 active site 1005048003076 phosphorylation site [posttranslational modification] 1005048003077 intermolecular recognition site; other site 1005048003078 dimerization interface [polypeptide binding]; other site 1005048003079 Hpt domain; Region: Hpt; pfam01627 1005048003080 putative binding surface; other site 1005048003081 active site 1005048003082 transcriptional activator FlhD; Provisional; Region: PRK02909 1005048003083 transcriptional activator FlhC; Provisional; Region: PRK12722 1005048003084 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1005048003085 flagellar motor protein MotA; Validated; Region: PRK09110 1005048003086 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1005048003087 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1005048003088 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048003089 ligand binding site [chemical binding]; other site 1005048003090 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048003091 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 1005048003092 active site 1005048003093 phosphorylation site [posttranslational modification] 1005048003094 intermolecular recognition site; other site 1005048003095 dimerization interface [polypeptide binding]; other site 1005048003096 chemotaxis protein CheA; Provisional; Region: PRK10547 1005048003097 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 1005048003098 putative binding surface; other site 1005048003099 active site 1005048003100 CheY binding; Region: CheY-binding; pfam09078 1005048003101 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1005048003102 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 1005048003103 ATP binding site [chemical binding]; other site 1005048003104 Mg2+ binding site [ion binding]; other site 1005048003105 G-X-G motif; other site 1005048003106 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 1005048003107 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 1005048003108 putative CheA interaction surface; other site 1005048003109 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048003110 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1005048003111 catalytic triad [active] 1005048003112 putative active site [active] 1005048003113 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048003114 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1005048003115 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048003116 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1005048003117 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1005048003118 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 1005048003119 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 1005048003120 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048003121 portal vertex protein; Provisional; Region: Q; PHA02536 1005048003122 Phage portal protein; Region: Phage_portal; pfam04860 1005048003123 terminase ATPase subunit; Provisional; Region: P; PHA02535 1005048003124 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1005048003125 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1005048003126 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1005048003127 capsid protein; Provisional; Region: N; PHA02538 1005048003128 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1005048003129 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1005048003130 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1005048003131 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1005048003132 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1005048003133 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1005048003134 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1005048003135 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1005048003136 potential frameshift: common BLAST hit: gi|71733893|ref|YP_274112.1| prophage PSPPH02 adenine modification methytransferase 1005048003137 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1005048003138 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1005048003139 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1005048003140 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1005048003141 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1005048003142 Baseplate J-like protein; Region: Baseplate_J; cl01294 1005048003143 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1005048003144 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1005048003145 major tail sheath protein; Provisional; Region: FI; PHA02560 1005048003146 major tail tube protein; Provisional; Region: FII; PHA02600 1005048003147 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1005048003148 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1005048003149 membrane protein P6; Region: PHA01399 1005048003150 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1005048003151 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1005048003152 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1005048003153 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1005048003154 active site 1005048003155 metal binding site [ion binding]; metal-binding site 1005048003156 interdomain interaction site; other site 1005048003157 integrase; Provisional; Region: int; PHA02601 1005048003158 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 1005048003159 active site 1005048003160 DNA binding site [nucleotide binding] 1005048003161 Int/Topo IB signature motif; other site 1005048003162 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1005048003163 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1005048003164 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1005048003165 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 1005048003166 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048003167 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1005048003168 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 1005048003169 DNA binding residues [nucleotide binding] 1005048003170 DNA primase; Validated; Region: dnaG; PRK05667 1005048003171 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1005048003172 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1005048003173 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 1005048003174 active site 1005048003175 metal binding site [ion binding]; metal-binding site 1005048003176 interdomain interaction site; other site 1005048003177 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1005048003178 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 1005048003179 Yqey-like protein; Region: YqeY; pfam09424 1005048003180 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1005048003181 HI0933-like protein; Region: HI0933_like; pfam03486 1005048003182 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1005048003183 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1005048003184 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1005048003185 glycosyl transferase family protein; Provisional; Region: PRK08136 1005048003186 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1005048003187 RNA polymerase sigma factor; Provisional; Region: PRK12520 1005048003188 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048003189 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 1005048003190 DNA binding residues [nucleotide binding] 1005048003191 Putative zinc-finger; Region: zf-HC2; pfam13490 1005048003192 UGMP family protein; Validated; Region: PRK09604 1005048003193 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1005048003194 helicase 45; Provisional; Region: PTZ00424 1005048003195 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 1005048003196 ATP binding site [chemical binding]; other site 1005048003197 Mg++ binding site [ion binding]; other site 1005048003198 motif III; other site 1005048003199 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 1005048003200 nucleotide binding region [chemical binding]; other site 1005048003201 ATP-binding site [chemical binding]; other site 1005048003202 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1005048003203 active site 1005048003204 HIGH motif; other site 1005048003205 nucleotide binding site [chemical binding]; other site 1005048003206 active site 1005048003207 KMSKS motif; other site 1005048003208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048003209 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1005048003210 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 1005048003211 dimerization interface [polypeptide binding]; other site 1005048003212 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1005048003213 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048003214 rhodanese superfamily protein; Provisional; Region: PRK05320 1005048003215 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1005048003216 active site residue [active] 1005048003217 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1005048003218 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1005048003219 putative active site [active] 1005048003220 putative PHP Thumb interface [polypeptide binding]; other site 1005048003221 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 1005048003222 generic binding surface II; other site 1005048003223 generic binding surface I; other site 1005048003224 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1005048003225 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048003226 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1005048003227 Walker A/P-loop; other site 1005048003228 ATP binding site [chemical binding]; other site 1005048003229 Q-loop/lid; other site 1005048003230 ABC transporter signature motif; other site 1005048003231 Walker B; other site 1005048003232 D-loop; other site 1005048003233 H-loop/switch region; other site 1005048003234 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1005048003235 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 1005048003236 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1005048003237 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 1005048003238 putative active site [active] 1005048003239 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 1005048003240 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1005048003241 Ligand binding site; other site 1005048003242 metal-binding site 1005048003243 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 1005048003244 ribonuclease G; Provisional; Region: PRK11712 1005048003245 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 1005048003246 homodimer interface [polypeptide binding]; other site 1005048003247 oligonucleotide binding site [chemical binding]; other site 1005048003248 Maf-like protein; Region: Maf; pfam02545 1005048003249 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 1005048003250 active site 1005048003251 dimer interface [polypeptide binding]; other site 1005048003252 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1005048003253 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1005048003254 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1005048003255 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1005048003256 active site 1005048003257 (T/H)XGH motif; other site 1005048003258 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1005048003259 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1005048003260 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1005048003261 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1005048003262 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1005048003263 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1005048003264 hypothetical protein; Validated; Region: PRK00110 1005048003265 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1005048003266 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 1005048003267 Walker A motif; other site 1005048003268 ATP binding site [chemical binding]; other site 1005048003269 EamA-like transporter family; Region: EamA; pfam00892 1005048003270 EamA-like transporter family; Region: EamA; pfam00892 1005048003271 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1005048003272 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1005048003273 NADP binding site [chemical binding]; other site 1005048003274 dimer interface [polypeptide binding]; other site 1005048003275 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1005048003276 aminopeptidase N; Provisional; Region: pepN; PRK14015 1005048003277 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1005048003278 active site 1005048003279 Zn binding site [ion binding]; other site 1005048003280 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1005048003281 AMP binding site [chemical binding]; other site 1005048003282 metal binding site [ion binding]; metal-binding site 1005048003283 active site 1005048003284 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1005048003285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048003286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048003287 metal binding site [ion binding]; metal-binding site 1005048003288 active site 1005048003289 I-site; other site 1005048003290 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1005048003291 homodimer interface [polypeptide binding]; other site 1005048003292 chemical substrate binding site [chemical binding]; other site 1005048003293 oligomer interface [polypeptide binding]; other site 1005048003294 metal binding site [ion binding]; metal-binding site 1005048003295 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1005048003296 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1005048003297 DNA binding residues [nucleotide binding] 1005048003298 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048003299 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 1005048003300 putative active site [active] 1005048003301 putative FMN binding site [chemical binding]; other site 1005048003302 putative substrate binding site [chemical binding]; other site 1005048003303 putative catalytic residue [active] 1005048003304 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1005048003305 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1005048003306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048003307 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048003308 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048003309 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048003310 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1005048003311 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1005048003312 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1005048003313 PAAR motif; Region: PAAR_motif; pfam05488 1005048003314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048003315 Serine hydrolase; Region: Ser_hydrolase; cl17834 1005048003316 Rubredoxin [Energy production and conversion]; Region: COG1773 1005048003317 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 1005048003318 iron binding site [ion binding]; other site 1005048003319 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1005048003320 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048003321 nucleophilic elbow; other site 1005048003322 catalytic triad; other site 1005048003323 TAP-like protein; Region: Abhydrolase_4; pfam08386 1005048003324 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1005048003325 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048003326 putative di-iron ligands [ion binding]; other site 1005048003327 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1005048003328 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 1005048003329 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048003330 Di-iron ligands [ion binding]; other site 1005048003331 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048003332 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 1005048003333 Di-iron ligands [ion binding]; other site 1005048003334 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 1005048003335 acyl-CoA synthetase; Validated; Region: PRK05850 1005048003336 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1005048003337 acyl-activating enzyme (AAE) consensus motif; other site 1005048003338 active site 1005048003339 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 1005048003340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048003341 putative substrate translocation pore; other site 1005048003342 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 1005048003343 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1005048003344 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; cl00938 1005048003345 iron-sulfur cluster [ion binding]; other site 1005048003346 [2Fe-2S] cluster binding site [ion binding]; other site 1005048003347 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1005048003348 hydrophobic ligand binding site; other site 1005048003349 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1005048003350 putative di-iron ligands [ion binding]; other site 1005048003351 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1005048003352 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048003353 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048003354 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 1005048003355 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 1005048003356 dimer interface [polypeptide binding]; other site 1005048003357 active site 1005048003358 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048003359 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 1005048003360 putative substrate translocation pore; other site 1005048003361 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1005048003362 Transposase; Region: HTH_Tnp_1; cl17663 1005048003363 Transposase; Region: HTH_Tnp_1; cl17663 1005048003364 Integrase core domain; Region: rve_3; pfam13683 1005048003365 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1005048003366 N- and C-terminal domain interface [polypeptide binding]; other site 1005048003367 D-xylulose kinase; Region: XylB; TIGR01312 1005048003368 active site 1005048003369 MgATP binding site [chemical binding]; other site 1005048003370 catalytic site [active] 1005048003371 metal binding site [ion binding]; metal-binding site 1005048003372 xylulose binding site [chemical binding]; other site 1005048003373 homodimer interface [polypeptide binding]; other site 1005048003374 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1005048003375 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1005048003376 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1005048003377 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1005048003378 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005048003379 Walker A/P-loop; other site 1005048003380 ATP binding site [chemical binding]; other site 1005048003381 Q-loop/lid; other site 1005048003382 ABC transporter signature motif; other site 1005048003383 Walker B; other site 1005048003384 D-loop; other site 1005048003385 H-loop/switch region; other site 1005048003386 TOBE domain; Region: TOBE; pfam03459 1005048003387 TOBE domain; Region: TOBE_2; pfam08402 1005048003388 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1005048003389 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 1005048003390 motif II; other site 1005048003391 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048003392 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 1005048003393 dimer interface [polypeptide binding]; other site 1005048003394 conserved gate region; other site 1005048003395 putative PBP binding loops; other site 1005048003396 ABC-ATPase subunit interface; other site 1005048003397 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 1005048003398 conserved gate region; other site 1005048003399 putative PBP binding loops; other site 1005048003400 ABC-ATPase subunit interface; other site 1005048003401 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048003402 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005048003403 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1005048003404 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1005048003405 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1005048003406 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1005048003407 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1005048003408 G1 box; other site 1005048003409 GTP/Mg2+ binding site [chemical binding]; other site 1005048003410 Switch I region; other site 1005048003411 G2 box; other site 1005048003412 G3 box; other site 1005048003413 Switch II region; other site 1005048003414 G4 box; other site 1005048003415 G5 box; other site 1005048003416 Nucleoside recognition; Region: Gate; pfam07670 1005048003417 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1005048003418 Nucleoside recognition; Region: Gate; pfam07670 1005048003419 FeoA domain; Region: FeoA; pfam04023 1005048003420 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048003421 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048003422 putative ligand binding site [chemical binding]; other site 1005048003423 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1005048003424 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005048003425 NAD(P) binding site [chemical binding]; other site 1005048003426 catalytic residues [active] 1005048003427 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048003428 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048003429 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 1005048003430 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 1005048003431 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048003432 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 1005048003433 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 1005048003434 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048003435 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048003436 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 1005048003437 S-adenosylmethionine binding site [chemical binding]; other site 1005048003438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048003439 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1005048003440 NAD(P) binding site [chemical binding]; other site 1005048003441 active site 1005048003442 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1005048003443 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1005048003444 NADP-binding site; other site 1005048003445 homotetramer interface [polypeptide binding]; other site 1005048003446 substrate binding site [chemical binding]; other site 1005048003447 homodimer interface [polypeptide binding]; other site 1005048003448 active site 1005048003449 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1005048003450 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1005048003451 Substrate binding site; other site 1005048003452 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1005048003453 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1005048003454 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1005048003455 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1005048003456 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1005048003457 Walker A/P-loop; other site 1005048003458 ATP binding site [chemical binding]; other site 1005048003459 Q-loop/lid; other site 1005048003460 ABC transporter signature motif; other site 1005048003461 Walker B; other site 1005048003462 D-loop; other site 1005048003463 H-loop/switch region; other site 1005048003464 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1005048003465 putative carbohydrate binding site [chemical binding]; other site 1005048003466 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048003467 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1005048003468 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048003469 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1005048003470 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048003471 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 1005048003472 putative ADP-binding pocket [chemical binding]; other site 1005048003473 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048003474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048003475 metal binding site [ion binding]; metal-binding site 1005048003476 active site 1005048003477 I-site; other site 1005048003478 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1005048003479 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048003480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048003481 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 1005048003482 dimerization interface [polypeptide binding]; other site 1005048003483 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1005048003484 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1005048003485 DNA binding residues [nucleotide binding] 1005048003486 dimer interface [polypeptide binding]; other site 1005048003487 putative metal binding site [ion binding]; other site 1005048003488 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1005048003489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005048003490 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1005048003491 Putative phosphatase (DUF442); Region: DUF442; cl17385 1005048003492 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1005048003493 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1005048003494 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1005048003495 S4 domain; Region: S4_2; pfam13275 1005048003496 Predicted membrane protein [Function unknown]; Region: COG3686 1005048003497 Predicted metalloprotease [General function prediction only]; Region: COG2321 1005048003498 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1005048003499 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048003500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048003501 NAD(P) binding site [chemical binding]; other site 1005048003502 active site 1005048003503 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1005048003504 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048003505 active site 1005048003506 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1005048003507 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1005048003508 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048003509 Coenzyme A binding pocket [chemical binding]; other site 1005048003510 Predicted transcriptional regulators [Transcription]; Region: COG1695 1005048003511 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1005048003512 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 1005048003513 exonuclease I; Provisional; Region: sbcB; PRK11779 1005048003514 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1005048003515 active site 1005048003516 catalytic site [active] 1005048003517 substrate binding site [chemical binding]; other site 1005048003518 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1005048003519 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1005048003520 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1005048003521 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1005048003522 non-specific DNA binding site [nucleotide binding]; other site 1005048003523 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 1005048003524 salt bridge; other site 1005048003525 sequence-specific DNA binding site [nucleotide binding]; other site 1005048003526 BCCT family transporter; Region: BCCT; cl00569 1005048003527 transcriptional regulator BetI; Validated; Region: PRK00767 1005048003528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048003529 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1005048003530 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1005048003531 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1005048003532 tetrameric interface [polypeptide binding]; other site 1005048003533 NAD binding site [chemical binding]; other site 1005048003534 catalytic residues [active] 1005048003535 choline dehydrogenase; Validated; Region: PRK02106 1005048003536 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1005048003537 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 1005048003538 active site 1005048003539 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 1005048003540 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1005048003541 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048003542 active site 1005048003543 HIGH motif; other site 1005048003544 nucleotide binding site [chemical binding]; other site 1005048003545 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1005048003546 KMSKS motif; other site 1005048003547 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1005048003548 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1005048003549 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 1005048003550 active site 1005048003551 phosphorylation site [posttranslational modification] 1005048003552 intermolecular recognition site; other site 1005048003553 dimerization interface [polypeptide binding]; other site 1005048003554 LytTr DNA-binding domain; Region: LytTR; smart00850 1005048003555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1005048003556 Histidine kinase; Region: His_kinase; pfam06580 1005048003557 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 1005048003558 ATP binding site [chemical binding]; other site 1005048003559 Mg2+ binding site [ion binding]; other site 1005048003560 G-X-G motif; other site 1005048003561 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1005048003562 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1005048003563 putative active site [active] 1005048003564 catalytic site [active] 1005048003565 putative metal binding site [ion binding]; other site 1005048003566 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1005048003567 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 1005048003568 motif 1; other site 1005048003569 active site 1005048003570 motif 2; other site 1005048003571 motif 3; other site 1005048003572 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1005048003573 DHHA1 domain; Region: DHHA1; pfam02272 1005048003574 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1005048003575 nudix motif; other site 1005048003576 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1005048003577 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 1005048003578 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 1005048003579 CPxP motif; other site 1005048003580 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 1005048003581 Ligand binding site [chemical binding]; other site 1005048003582 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1005048003583 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1005048003584 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 1005048003585 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1005048003586 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1005048003587 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1005048003588 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048003589 active site 1005048003590 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1005048003591 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1005048003592 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1005048003593 RimM N-terminal domain; Region: RimM; pfam01782 1005048003594 PRC-barrel domain; Region: PRC; pfam05239 1005048003595 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1005048003596 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1005048003597 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 1005048003598 putative active site [active] 1005048003599 putative CoA binding site [chemical binding]; other site 1005048003600 nudix motif; other site 1005048003601 metal binding site [ion binding]; metal-binding site 1005048003602 CobD/CbiB family protein; Provisional; Region: PRK07630 1005048003603 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1005048003604 CHASE domain; Region: CHASE; pfam03924 1005048003605 PAS domain; Region: PAS_9; pfam13426 1005048003606 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 1005048003607 putative active site [active] 1005048003608 heme pocket [chemical binding]; other site 1005048003609 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048003610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048003611 metal binding site [ion binding]; metal-binding site 1005048003612 active site 1005048003613 I-site; other site 1005048003614 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 1005048003615 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1005048003616 Class II fumarases; Region: Fumarase_classII; cd01362 1005048003617 active site 1005048003618 tetramer interface [polypeptide binding]; other site 1005048003619 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1005048003620 Surface antigen; Region: Bac_surface_Ag; pfam01103 1005048003621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1005048003622 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1005048003623 Family of unknown function (DUF490); Region: DUF490; pfam04357 1005048003624 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 1005048003625 putative transporter; Provisional; Region: PRK10504 1005048003626 putative substrate translocation pore; other site 1005048003627 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1005048003628 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1005048003629 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 1005048003630 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1005048003631 substrate-cofactor binding pocket; other site 1005048003632 homodimer interface [polypeptide binding]; other site 1005048003633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048003634 catalytic residue [active] 1005048003635 Predicted membrane protein [Function unknown]; Region: COG2510 1005048003636 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048003637 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1005048003638 Protein export membrane protein; Region: SecD_SecF; cl14618 1005048003639 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1005048003640 Protein export membrane protein; Region: SecD_SecF; cl14618 1005048003641 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048003642 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048003643 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048003644 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1005048003645 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 1005048003646 active site 1005048003647 phosphorylation site [posttranslational modification] 1005048003648 intermolecular recognition site; other site 1005048003649 dimerization interface [polypeptide binding]; other site 1005048003650 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 1005048003651 DNA binding site [nucleotide binding] 1005048003652 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 1005048003653 dimerization interface [polypeptide binding]; other site 1005048003654 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 1005048003655 ATP binding site [chemical binding]; other site 1005048003656 Mg2+ binding site [ion binding]; other site 1005048003657 G-X-G motif; other site 1005048003658 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1005048003659 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 1005048003660 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1005048003661 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1005048003662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048003663 HAMP domain; Region: HAMP; pfam00672 1005048003664 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 1005048003665 dimer interface [polypeptide binding]; other site 1005048003666 phosphorylation site [posttranslational modification] 1005048003667 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 1005048003668 ATP binding site [chemical binding]; other site 1005048003669 Mg2+ binding site [ion binding]; other site 1005048003670 G-X-G motif; other site 1005048003671 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048003672 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 1005048003673 active site 1005048003674 phosphorylation site [posttranslational modification] 1005048003675 intermolecular recognition site; other site 1005048003676 dimerization interface [polypeptide binding]; other site 1005048003677 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 1005048003678 DNA binding site [nucleotide binding] 1005048003679 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1005048003680 active site 1005048003681 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048003682 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 1005048003683 trimer interface [polypeptide binding]; other site 1005048003684 eyelet of channel; other site 1005048003685 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1005048003686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048003687 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 1005048003688 dimer interface [polypeptide binding]; other site 1005048003689 phosphorylation site [posttranslational modification] 1005048003690 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 1005048003691 ATP binding site [chemical binding]; other site 1005048003692 Mg2+ binding site [ion binding]; other site 1005048003693 G-X-G motif; other site 1005048003694 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1005048003695 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 1005048003696 active site 1005048003697 phosphorylation site [posttranslational modification] 1005048003698 intermolecular recognition site; other site 1005048003699 dimerization interface [polypeptide binding]; other site 1005048003700 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 1005048003701 DNA binding site [nucleotide binding] 1005048003702 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1005048003703 Amidohydrolase; Region: Amidohydro_2; pfam04909 1005048003704 active site 1005048003705 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1005048003706 dinuclear metal binding motif [ion binding]; other site 1005048003707 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1005048003708 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1005048003709 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1005048003710 active site 1005048003711 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1005048003712 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005048003713 Walker A/P-loop; other site 1005048003714 ATP binding site [chemical binding]; other site 1005048003715 Q-loop/lid; other site 1005048003716 ABC transporter signature motif; other site 1005048003717 Walker B; other site 1005048003718 D-loop; other site 1005048003719 H-loop/switch region; other site 1005048003720 TOBE domain; Region: TOBE_2; pfam08402 1005048003721 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048003722 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 1005048003723 dimer interface [polypeptide binding]; other site 1005048003724 conserved gate region; other site 1005048003725 putative PBP binding loops; other site 1005048003726 ABC-ATPase subunit interface; other site 1005048003727 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 1005048003728 dimer interface [polypeptide binding]; other site 1005048003729 conserved gate region; other site 1005048003730 ABC-ATPase subunit interface; other site 1005048003731 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048003732 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048003733 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1005048003734 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048003735 active site 1005048003736 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1005048003737 homodimer interface [polypeptide binding]; other site 1005048003738 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 1005048003739 NAD binding site [chemical binding]; other site 1005048003740 active site 1005048003741 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1005048003742 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1005048003743 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1005048003744 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048003745 acyl-activating enzyme (AAE) consensus motif; other site 1005048003746 AMP binding site [chemical binding]; other site 1005048003747 active site 1005048003748 CoA binding site [chemical binding]; other site 1005048003749 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1005048003750 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 1005048003751 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1005048003752 substrate binding site [chemical binding]; other site 1005048003753 oxyanion hole (OAH) forming residues; other site 1005048003754 trimer interface [polypeptide binding]; other site 1005048003755 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1005048003756 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1005048003757 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1005048003758 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 1005048003759 dimer interface [polypeptide binding]; other site 1005048003760 active site 1005048003761 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048003762 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048003763 superoxide dismutase; Provisional; Region: PRK10543 1005048003764 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1005048003765 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1005048003766 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1005048003767 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 1005048003768 generic binding surface II; other site 1005048003769 generic binding surface I; other site 1005048003770 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1005048003771 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048003772 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1005048003773 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048003774 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048003775 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1005048003776 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1005048003777 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1005048003778 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1005048003779 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1005048003780 Ligand binding site; other site 1005048003781 oligomer interface; other site 1005048003782 adenylate kinase; Reviewed; Region: adk; PRK00279 1005048003783 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 1005048003784 AMP-binding site [chemical binding]; other site 1005048003785 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1005048003786 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1005048003787 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 1005048003788 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048003789 ligand binding site [chemical binding]; other site 1005048003790 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1005048003791 active site 1005048003792 nucleophile elbow; other site 1005048003793 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1005048003794 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1005048003795 active site 1005048003796 barstar interaction site; other site 1005048003797 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 1005048003798 putative RNAase interaction site [polypeptide binding]; other site 1005048003799 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1005048003800 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1005048003801 active site 1005048003802 substrate binding site [chemical binding]; other site 1005048003803 cosubstrate binding site; other site 1005048003804 catalytic site [active] 1005048003805 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 1005048003806 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1005048003807 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1005048003808 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005048003809 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048003810 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 1005048003811 Di-iron ligands [ion binding]; other site 1005048003812 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1005048003813 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1005048003814 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1005048003815 hypothetical protein; Reviewed; Region: PRK00024 1005048003816 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1005048003817 MPN+ (JAMM) motif; other site 1005048003818 Zinc-binding site [ion binding]; other site 1005048003819 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005048003820 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1005048003821 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1005048003822 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1005048003823 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048003824 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 1005048003825 TM-ABC transporter signature motif; other site 1005048003826 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048003827 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 1005048003828 TM-ABC transporter signature motif; other site 1005048003829 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048003830 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048003831 Walker A/P-loop; other site 1005048003832 ATP binding site [chemical binding]; other site 1005048003833 Q-loop/lid; other site 1005048003834 ABC transporter signature motif; other site 1005048003835 Walker B; other site 1005048003836 D-loop; other site 1005048003837 H-loop/switch region; other site 1005048003838 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048003839 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048003840 Walker A/P-loop; other site 1005048003841 ATP binding site [chemical binding]; other site 1005048003842 Q-loop/lid; other site 1005048003843 ABC transporter signature motif; other site 1005048003844 Walker B; other site 1005048003845 D-loop; other site 1005048003846 H-loop/switch region; other site 1005048003847 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1005048003848 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 1005048003849 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048003850 catalytic residue [active] 1005048003851 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1005048003852 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1005048003853 HAMP domain; Region: HAMP; pfam00672 1005048003854 dimerization interface [polypeptide binding]; other site 1005048003855 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 1005048003856 dimer interface [polypeptide binding]; other site 1005048003857 phosphorylation site [posttranslational modification] 1005048003858 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 1005048003859 ATP binding site [chemical binding]; other site 1005048003860 Mg2+ binding site [ion binding]; other site 1005048003861 G-X-G motif; other site 1005048003862 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1005048003863 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 1005048003864 active site 1005048003865 phosphorylation site [posttranslational modification] 1005048003866 intermolecular recognition site; other site 1005048003867 dimerization interface [polypeptide binding]; other site 1005048003868 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 1005048003869 DNA binding site [nucleotide binding] 1005048003870 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1005048003871 Protein export membrane protein; Region: SecD_SecF; cl14618 1005048003872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048003873 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048003874 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048003875 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 1005048003876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048003877 putative substrate translocation pore; other site 1005048003878 CTP synthetase; Validated; Region: pyrG; PRK05380 1005048003879 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 1005048003880 Catalytic site [active] 1005048003881 active site 1005048003882 UTP binding site [chemical binding]; other site 1005048003883 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1005048003884 active site 1005048003885 putative oxyanion hole; other site 1005048003886 catalytic triad [active] 1005048003887 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1005048003888 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1005048003889 enolase; Provisional; Region: eno; PRK00077 1005048003890 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 1005048003891 dimer interface [polypeptide binding]; other site 1005048003892 metal binding site [ion binding]; metal-binding site 1005048003893 substrate binding pocket [chemical binding]; other site 1005048003894 Septum formation initiator; Region: DivIC; cl17659 1005048003895 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1005048003896 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1005048003897 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 1005048003898 dimerization interface [polypeptide binding]; other site 1005048003899 domain crossover interface; other site 1005048003900 redox-dependent activation switch; other site 1005048003901 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1005048003902 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 1005048003903 trimer interface [polypeptide binding]; other site 1005048003904 putative metal binding site [ion binding]; other site 1005048003905 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1005048003906 dinuclear metal binding motif [ion binding]; other site 1005048003907 RDD family; Region: RDD; pfam06271 1005048003908 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1005048003909 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 1005048003910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048003911 RNA polymerase factor sigma-70; Validated; Region: PRK09047 1005048003912 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 1005048003913 DNA binding residues [nucleotide binding] 1005048003914 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 1005048003915 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005048003916 PYR/PP interface [polypeptide binding]; other site 1005048003917 dimer interface [polypeptide binding]; other site 1005048003918 TPP binding site [chemical binding]; other site 1005048003919 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005048003920 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 1005048003921 TPP-binding site [chemical binding]; other site 1005048003922 dimer interface [polypeptide binding]; other site 1005048003923 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1005048003924 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1005048003925 putative valine binding site [chemical binding]; other site 1005048003926 dimer interface [polypeptide binding]; other site 1005048003927 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1005048003928 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1005048003929 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1005048003930 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1005048003931 Ion transport protein; Region: Ion_trans; pfam00520 1005048003932 Ion channel; Region: Ion_trans_2; pfam07885 1005048003933 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1005048003934 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1005048003935 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1005048003936 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1005048003937 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1005048003938 BON domain; Region: BON; pfam04972 1005048003939 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048003940 2-isopropylmalate synthase; Validated; Region: PRK00915 1005048003941 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1005048003942 active site 1005048003943 catalytic residues [active] 1005048003944 metal binding site [ion binding]; metal-binding site 1005048003945 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1005048003946 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1005048003947 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 1005048003948 putative active site pocket [active] 1005048003949 dimerization interface [polypeptide binding]; other site 1005048003950 putative catalytic residue [active] 1005048003951 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048003952 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1005048003953 substrate binding site [chemical binding]; other site 1005048003954 ATP binding site [chemical binding]; other site 1005048003955 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1005048003956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 1005048003957 dimer interface [polypeptide binding]; other site 1005048003958 active site 1005048003959 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048003960 substrate binding site [chemical binding]; other site 1005048003961 catalytic residue [active] 1005048003962 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005048003963 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005048003964 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 1005048003965 putative active site [active] 1005048003966 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1005048003967 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 1005048003968 active site 1005048003969 putative substrate binding pocket [chemical binding]; other site 1005048003970 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 1005048003971 homotrimer interaction site [polypeptide binding]; other site 1005048003972 putative active site [active] 1005048003973 GntP family permease; Region: GntP_permease; pfam02447 1005048003974 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1005048003975 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048003976 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048003977 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048003978 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048003979 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1005048003980 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048003981 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048003982 polyphosphate kinase; Provisional; Region: PRK05443 1005048003983 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1005048003984 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1005048003985 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1005048003986 putative domain interface [polypeptide binding]; other site 1005048003987 putative active site [active] 1005048003988 catalytic site [active] 1005048003989 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1005048003990 putative domain interface [polypeptide binding]; other site 1005048003991 putative active site [active] 1005048003992 catalytic site [active] 1005048003993 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005048003994 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 1005048003995 dimer interface [polypeptide binding]; other site 1005048003996 conserved gate region; other site 1005048003997 putative PBP binding loops; other site 1005048003998 ABC-ATPase subunit interface; other site 1005048003999 cystine transporter subunit; Provisional; Region: PRK11260 1005048004000 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 1005048004001 substrate binding pocket [chemical binding]; other site 1005048004002 membrane-bound complex binding site; other site 1005048004003 hinge residues; other site 1005048004004 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1005048004005 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1005048004006 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004007 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004008 ABC transporter; Region: ABC_tran_2; pfam12848 1005048004009 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004010 HemK family putative methylases; Region: hemK_fam; TIGR00536 1005048004011 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 1005048004012 S-adenosylmethionine binding site [chemical binding]; other site 1005048004013 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048004014 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 1005048004015 S-adenosylmethionine binding site [chemical binding]; other site 1005048004016 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1005048004017 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1005048004018 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1005048004019 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1005048004020 metal binding site [ion binding]; metal-binding site 1005048004021 dimer interface [polypeptide binding]; other site 1005048004022 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 1005048004023 ArsC family; Region: ArsC; pfam03960 1005048004024 putative catalytic residues [active] 1005048004025 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 1005048004026 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 1005048004027 Walker A motif; other site 1005048004028 ATP binding site [chemical binding]; other site 1005048004029 Walker B motif; other site 1005048004030 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1005048004031 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1005048004032 trimer interface [polypeptide binding]; other site 1005048004033 active site 1005048004034 substrate binding site [chemical binding]; other site 1005048004035 CoA binding site [chemical binding]; other site 1005048004036 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1005048004037 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 1005048004038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048004039 homodimer interface [polypeptide binding]; other site 1005048004040 catalytic residue [active] 1005048004041 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1005048004042 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1005048004043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048004044 Q-loop/lid; other site 1005048004045 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1005048004046 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1005048004047 Q-loop/lid; other site 1005048004048 ABC transporter signature motif; other site 1005048004049 Walker B; other site 1005048004050 D-loop; other site 1005048004051 H-loop/switch region; other site 1005048004052 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1005048004053 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1005048004054 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 1005048004055 nucleotide binding pocket [chemical binding]; other site 1005048004056 K-X-D-G motif; other site 1005048004057 catalytic site [active] 1005048004058 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1005048004059 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1005048004060 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 1005048004061 DNA binding site [nucleotide binding] 1005048004062 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 1005048004063 Dimer interface [polypeptide binding]; other site 1005048004064 BRCT sequence motif; other site 1005048004065 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1005048004066 active site 1005048004067 tetramer interface; other site 1005048004068 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 1005048004069 active site 1005048004070 catalytic residues [active] 1005048004071 metal binding site [ion binding]; metal-binding site 1005048004072 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1005048004073 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1005048004074 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 1005048004075 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1005048004076 active site 1005048004077 dimer interface [polypeptide binding]; other site 1005048004078 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048004079 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 1005048004080 trimer interface [polypeptide binding]; other site 1005048004081 eyelet of channel; other site 1005048004082 Predicted membrane protein [Function unknown]; Region: COG2855 1005048004083 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1005048004084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004085 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 1005048004086 putative dimerization interface [polypeptide binding]; other site 1005048004087 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1005048004088 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1005048004089 putative ligand binding site [chemical binding]; other site 1005048004090 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1005048004091 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048004092 Walker A/P-loop; other site 1005048004093 ATP binding site [chemical binding]; other site 1005048004094 Q-loop/lid; other site 1005048004095 ABC transporter signature motif; other site 1005048004096 Walker B; other site 1005048004097 D-loop; other site 1005048004098 H-loop/switch region; other site 1005048004099 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048004100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048004101 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048004102 TM-ABC transporter signature motif; other site 1005048004103 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1005048004104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1005048004105 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048004106 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1005048004107 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1005048004108 dimer interface [polypeptide binding]; other site 1005048004109 NADP binding site [chemical binding]; other site 1005048004110 catalytic residues [active] 1005048004111 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1005048004112 classical (c) SDRs; Region: SDR_c; cd05233 1005048004113 NAD(P) binding site [chemical binding]; other site 1005048004114 active site 1005048004115 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1005048004116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004117 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1005048004118 putative dimerization interface [polypeptide binding]; other site 1005048004119 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048004120 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 1005048004121 trimer interface [polypeptide binding]; other site 1005048004122 eyelet of channel; other site 1005048004123 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1005048004124 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1005048004125 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1005048004126 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1005048004127 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1005048004128 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1005048004129 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005048004130 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1005048004131 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1005048004132 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1005048004133 sensor protein KdpD; Provisional; Region: PRK10490 1005048004134 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1005048004135 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1005048004136 Ligand Binding Site [chemical binding]; other site 1005048004137 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1005048004138 GAF domain; Region: GAF_3; pfam13492 1005048004139 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 1005048004140 dimer interface [polypeptide binding]; other site 1005048004141 phosphorylation site [posttranslational modification] 1005048004142 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 1005048004143 ATP binding site [chemical binding]; other site 1005048004144 Mg2+ binding site [ion binding]; other site 1005048004145 G-X-G motif; other site 1005048004146 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1005048004147 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 1005048004148 active site 1005048004149 phosphorylation site [posttranslational modification] 1005048004150 intermolecular recognition site; other site 1005048004151 dimerization interface [polypeptide binding]; other site 1005048004152 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 1005048004153 DNA binding site [nucleotide binding] 1005048004154 Cupin domain; Region: Cupin_2; cl17218 1005048004155 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 1005048004156 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048004157 putative substrate translocation pore; other site 1005048004158 cyanophycin synthetase; Provisional; Region: PRK14016 1005048004159 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1005048004160 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048004161 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048004162 cyanophycin synthetase; Provisional; Region: PRK14016 1005048004163 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005048004164 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1005048004165 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048004166 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 1005048004167 Walker A/P-loop; other site 1005048004168 ATP binding site [chemical binding]; other site 1005048004169 Q-loop/lid; other site 1005048004170 ABC transporter signature motif; other site 1005048004171 Walker B; other site 1005048004172 D-loop; other site 1005048004173 H-loop/switch region; other site 1005048004174 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 1005048004175 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1005048004176 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 1005048004177 RNA binding surface [nucleotide binding]; other site 1005048004178 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1005048004179 active site 1005048004180 PII uridylyl-transferase; Provisional; Region: PRK03059 1005048004181 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005048004182 metal binding triad; other site 1005048004183 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1005048004184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005048004185 Zn2+ binding site [ion binding]; other site 1005048004186 Mg2+ binding site [ion binding]; other site 1005048004187 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 1005048004188 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 1005048004189 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 1005048004190 active site 1005048004191 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 1005048004192 rRNA interaction site [nucleotide binding]; other site 1005048004193 S8 interaction site; other site 1005048004194 putative laminin-1 binding site; other site 1005048004195 elongation factor Ts; Provisional; Region: tsf; PRK09377 1005048004196 UBA/TS-N domain; Region: UBA; pfam00627 1005048004197 Elongation factor TS; Region: EF_TS; pfam00889 1005048004198 Elongation factor TS; Region: EF_TS; pfam00889 1005048004199 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 1005048004200 putative nucleotide binding site [chemical binding]; other site 1005048004201 uridine monophosphate binding site [chemical binding]; other site 1005048004202 homohexameric interface [polypeptide binding]; other site 1005048004203 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1005048004204 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 1005048004205 hinge region; other site 1005048004206 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14836 1005048004207 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1005048004208 catalytic residue [active] 1005048004209 putative FPP diphosphate binding site; other site 1005048004210 putative FPP binding hydrophobic cleft; other site 1005048004211 dimer interface [polypeptide binding]; other site 1005048004212 putative IPP diphosphate binding site; other site 1005048004213 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1005048004214 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1005048004215 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1005048004216 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1005048004217 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1005048004218 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1005048004219 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 1005048004220 RIP metalloprotease RseP; Region: TIGR00054 1005048004221 active site 1005048004222 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 1005048004223 protein binding site [polypeptide binding]; other site 1005048004224 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 1005048004225 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 1005048004226 putative substrate binding region [chemical binding]; other site 1005048004227 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1005048004228 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048004229 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048004230 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048004231 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048004232 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048004233 Surface antigen; Region: Bac_surface_Ag; pfam01103 1005048004234 periplasmic chaperone; Provisional; Region: PRK10780 1005048004235 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1005048004236 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1005048004237 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1005048004238 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 1005048004239 trimer interface [polypeptide binding]; other site 1005048004240 active site 1005048004241 UDP-GlcNAc binding site [chemical binding]; other site 1005048004242 lipid binding site [chemical binding]; lipid-binding site 1005048004243 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 1005048004244 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1005048004245 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 1005048004246 active site 1005048004247 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1005048004248 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1005048004249 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1005048004250 RNA/DNA hybrid binding site [nucleotide binding]; other site 1005048004251 active site 1005048004252 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1005048004253 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1005048004254 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1005048004255 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1005048004256 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1005048004257 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1005048004258 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1005048004259 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1005048004260 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 1005048004261 binding surface 1005048004262 TPR motif; other site 1005048004263 TPR repeat; Region: TPR_11; pfam13414 1005048004264 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1005048004265 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 1005048004266 binding surface 1005048004267 TPR motif; other site 1005048004268 TPR repeat; Region: TPR_11; pfam13414 1005048004269 TPR repeat; Region: TPR_11; pfam13414 1005048004270 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 1005048004271 binding surface 1005048004272 TPR motif; other site 1005048004273 TPR repeat; Region: TPR_11; pfam13414 1005048004274 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 1005048004275 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 1005048004276 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1005048004277 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 1005048004278 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 1005048004279 SmpB-tmRNA interface; other site 1005048004280 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1005048004281 putative coenzyme Q binding site [chemical binding]; other site 1005048004282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1005048004283 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1005048004284 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1005048004285 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 1005048004286 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 1005048004287 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 1005048004288 active site 1005048004289 GMP synthase; Reviewed; Region: guaA; PRK00074 1005048004290 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1005048004291 AMP/PPi binding site [chemical binding]; other site 1005048004292 candidate oxyanion hole; other site 1005048004293 catalytic triad [active] 1005048004294 potential glutamine specificity residues [chemical binding]; other site 1005048004295 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 1005048004296 ATP Binding subdomain [chemical binding]; other site 1005048004297 Ligand Binding sites [chemical binding]; other site 1005048004298 Dimerization subdomain; other site 1005048004299 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1005048004300 catalytic triad [active] 1005048004301 putative active site [active] 1005048004302 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1005048004303 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048004304 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048004305 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 1005048004306 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1005048004307 sugar binding site [chemical binding]; other site 1005048004308 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048004309 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 1005048004310 trimer interface [polypeptide binding]; other site 1005048004311 eyelet of channel; other site 1005048004312 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1005048004313 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1005048004314 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1005048004315 Beta-lactamase; Region: Beta-lactamase; pfam00144 1005048004316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048004317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004318 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1005048004319 putative substrate binding pocket [chemical binding]; other site 1005048004320 putative dimerization interface [polypeptide binding]; other site 1005048004321 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1005048004322 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048004323 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 1005048004324 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 1005048004325 dimerization interface [polypeptide binding]; other site 1005048004326 substrate binding site [chemical binding]; other site 1005048004327 active site 1005048004328 calcium binding site [ion binding]; other site 1005048004329 Protein of unknown function DUF72; Region: DUF72; pfam01904 1005048004330 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1005048004331 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1005048004332 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1005048004333 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 1005048004334 ATP binding site [chemical binding]; other site 1005048004335 putative Mg++ binding site [ion binding]; other site 1005048004336 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 1005048004337 nucleotide binding region [chemical binding]; other site 1005048004338 ATP-binding site [chemical binding]; other site 1005048004339 DEAD/H associated; Region: DEAD_assoc; pfam08494 1005048004340 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1005048004341 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 1005048004342 FeS/SAM binding site; other site 1005048004343 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1005048004344 active site 1005048004345 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 1005048004346 nucleoside/Zn binding site; other site 1005048004347 dimer interface [polypeptide binding]; other site 1005048004348 catalytic motif [active] 1005048004349 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1005048004350 dimer interface [polypeptide binding]; other site 1005048004351 catalytic triad [active] 1005048004352 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048004353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004354 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 1005048004355 dimerization interface [polypeptide binding]; other site 1005048004356 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1005048004357 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1005048004358 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004359 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004360 ABC transporter; Region: ABC_tran_2; pfam12848 1005048004361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048004362 quinolinate synthetase; Provisional; Region: PRK09375 1005048004363 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 1005048004364 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 1005048004365 dimerization interface [polypeptide binding]; other site 1005048004366 active site 1005048004367 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1005048004368 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1005048004369 metal binding site [ion binding]; metal-binding site 1005048004370 dimer interface [polypeptide binding]; other site 1005048004371 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 1005048004372 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048004373 putative substrate translocation pore; other site 1005048004374 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048004375 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 1005048004376 putative substrate translocation pore; other site 1005048004377 L-aspartate oxidase; Provisional; Region: PRK09077 1005048004378 L-aspartate oxidase; Provisional; Region: PRK06175 1005048004379 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1005048004380 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1005048004381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048004382 ATP-grasp domain; Region: ATP-grasp; pfam02222 1005048004383 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 1005048004384 putative substrate translocation pore; other site 1005048004385 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1005048004386 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1005048004387 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1005048004388 putative oxidoreductase; Provisional; Region: PRK11579 1005048004389 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005048004390 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005048004391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048004392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004393 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 1005048004394 dimerization interface [polypeptide binding]; other site 1005048004395 Predicted membrane protein [Function unknown]; Region: COG4125 1005048004396 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1005048004397 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1005048004398 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1005048004399 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1005048004400 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1005048004401 active site 1005048004402 purine riboside binding site [chemical binding]; other site 1005048004403 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1005048004404 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005048004405 Walker A/P-loop; other site 1005048004406 ATP binding site [chemical binding]; other site 1005048004407 Q-loop/lid; other site 1005048004408 ABC transporter signature motif; other site 1005048004409 Walker B; other site 1005048004410 D-loop; other site 1005048004411 H-loop/switch region; other site 1005048004412 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 1005048004413 dimer interface [polypeptide binding]; other site 1005048004414 conserved gate region; other site 1005048004415 putative PBP binding loops; other site 1005048004416 ABC-ATPase subunit interface; other site 1005048004417 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 1005048004418 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 1005048004419 putative PBP binding loops; other site 1005048004420 dimer interface [polypeptide binding]; other site 1005048004421 ABC-ATPase subunit interface; other site 1005048004422 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048004423 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 1005048004424 substrate binding pocket [chemical binding]; other site 1005048004425 membrane-bound complex binding site; other site 1005048004426 hinge residues; other site 1005048004427 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048004428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048004429 DNA-binding site [nucleotide binding]; DNA binding site 1005048004430 FCD domain; Region: FCD; pfam07729 1005048004431 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005048004432 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048004433 Coenzyme A binding pocket [chemical binding]; other site 1005048004434 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005048004435 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1005048004436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004437 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048004438 dimerization interface [polypeptide binding]; other site 1005048004439 substrate binding pocket [chemical binding]; other site 1005048004440 Sulfatase; Region: Sulfatase; cl17466 1005048004441 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1005048004442 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1005048004443 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1005048004444 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1005048004445 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1005048004446 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1005048004447 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1005048004448 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 1005048004449 domain interfaces; other site 1005048004450 active site 1005048004451 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1005048004452 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 1005048004453 active site 1005048004454 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1005048004455 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1005048004456 HemY protein N-terminus; Region: HemY_N; pfam07219 1005048004457 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1005048004458 Domain of unknown function DUF21; Region: DUF21; pfam01595 1005048004459 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 1005048004460 Transporter associated domain; Region: CorC_HlyC; smart01091 1005048004461 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1005048004462 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048004463 YcaO domain protein; Region: TIGR03549 1005048004464 OsmC-like protein; Region: OsmC; pfam02566 1005048004465 YcaO-like family; Region: YcaO; pfam02624 1005048004466 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 1005048004467 putative C-terminal domain interface [polypeptide binding]; other site 1005048004468 putative GSH binding site (G-site) [chemical binding]; other site 1005048004469 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048004470 putative dimer interface [polypeptide binding]; other site 1005048004471 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1005048004472 dimer interface [polypeptide binding]; other site 1005048004473 N-terminal domain interface [polypeptide binding]; other site 1005048004474 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048004475 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 1005048004476 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1005048004477 classical (c) SDRs; Region: SDR_c; cd05233 1005048004478 NAD(P) binding site [chemical binding]; other site 1005048004479 active site 1005048004480 acetoacetate decarboxylase; Provisional; Region: PRK02265 1005048004481 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1005048004482 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1005048004483 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1005048004484 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1005048004485 G1 box; other site 1005048004486 putative GEF interaction site [polypeptide binding]; other site 1005048004487 GTP/Mg2+ binding site [chemical binding]; other site 1005048004488 Switch I region; other site 1005048004489 G2 box; other site 1005048004490 G3 box; other site 1005048004491 Switch II region; other site 1005048004492 G4 box; other site 1005048004493 G5 box; other site 1005048004494 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 1005048004495 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1005048004496 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 1005048004497 ATP binding site [chemical binding]; other site 1005048004498 putative Mg++ binding site [ion binding]; other site 1005048004499 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 1005048004500 nucleotide binding region [chemical binding]; other site 1005048004501 ATP-binding site [chemical binding]; other site 1005048004502 Helicase associated domain (HA2); Region: HA2; pfam04408 1005048004503 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1005048004504 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1005048004505 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1005048004506 trimer interface [polypeptide binding]; other site 1005048004507 active site 1005048004508 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1005048004509 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1005048004510 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 1005048004511 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 1005048004512 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048004513 catalytic residue [active] 1005048004514 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1005048004515 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1005048004516 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 1005048004517 folate binding site [chemical binding]; other site 1005048004518 NADP+ binding site [chemical binding]; other site 1005048004519 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1005048004520 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1005048004521 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1005048004522 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1005048004523 Ligand binding site; other site 1005048004524 DXD motif; other site 1005048004525 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1005048004526 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1005048004527 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1005048004528 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048004529 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1005048004530 Walker A/P-loop; other site 1005048004531 ATP binding site [chemical binding]; other site 1005048004532 Q-loop/lid; other site 1005048004533 ABC transporter signature motif; other site 1005048004534 Walker B; other site 1005048004535 D-loop; other site 1005048004536 H-loop/switch region; other site 1005048004537 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048004538 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1005048004539 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048004540 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048004541 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1005048004542 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 1005048004543 dimerization interface [polypeptide binding]; other site 1005048004544 active site 1005048004545 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1005048004546 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1005048004547 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1005048004548 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1005048004549 putative active site [active] 1005048004550 putative substrate binding site [chemical binding]; other site 1005048004551 putative cosubstrate binding site; other site 1005048004552 catalytic site [active] 1005048004553 transaldolase-like protein; Provisional; Region: PTZ00411 1005048004554 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1005048004555 active site 1005048004556 dimer interface [polypeptide binding]; other site 1005048004557 catalytic residue [active] 1005048004558 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1005048004559 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005048004560 Walker A/P-loop; other site 1005048004561 ATP binding site [chemical binding]; other site 1005048004562 Q-loop/lid; other site 1005048004563 ABC transporter signature motif; other site 1005048004564 Walker B; other site 1005048004565 D-loop; other site 1005048004566 H-loop/switch region; other site 1005048004567 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048004568 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 1005048004569 dimer interface [polypeptide binding]; other site 1005048004570 conserved gate region; other site 1005048004571 putative PBP binding loops; other site 1005048004572 ABC-ATPase subunit interface; other site 1005048004573 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 1005048004574 dimer interface [polypeptide binding]; other site 1005048004575 conserved gate region; other site 1005048004576 putative PBP binding loops; other site 1005048004577 ABC-ATPase subunit interface; other site 1005048004578 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005048004579 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005048004580 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1005048004581 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1005048004582 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1005048004583 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 1005048004584 glucokinase; Provisional; Region: glk; PRK00292 1005048004585 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005048004586 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 1005048004587 putative active site [active] 1005048004588 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048004589 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 1005048004590 trimer interface [polypeptide binding]; other site 1005048004591 eyelet of channel; other site 1005048004592 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1005048004593 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048004594 putative substrate binding site [chemical binding]; other site 1005048004595 putative ATP binding site [chemical binding]; other site 1005048004596 dimerization interface [polypeptide binding]; other site 1005048004597 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1005048004598 putative active cleft [active] 1005048004599 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1005048004600 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005048004601 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 1005048004602 putative active site [active] 1005048004603 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1005048004604 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1005048004605 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1005048004606 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1005048004607 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 1005048004608 active site 1005048004609 dimer interface [polypeptide binding]; other site 1005048004610 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 1005048004611 dimer interface [polypeptide binding]; other site 1005048004612 active site 1005048004613 phosphogluconate dehydratase; Validated; Region: PRK09054 1005048004614 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1005048004615 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1005048004616 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1005048004617 active site 1005048004618 intersubunit interface [polypeptide binding]; other site 1005048004619 catalytic residue [active] 1005048004620 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1005048004621 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 1005048004622 tetramer interface [polypeptide binding]; other site 1005048004623 heme binding pocket [chemical binding]; other site 1005048004624 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 1005048004625 dimer interface [polypeptide binding]; other site 1005048004626 conserved gate region; other site 1005048004627 ABC-ATPase subunit interface; other site 1005048004628 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1005048004629 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1005048004630 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 1005048004631 dimer interface [polypeptide binding]; other site 1005048004632 conserved gate region; other site 1005048004633 ABC-ATPase subunit interface; other site 1005048004634 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1005048004635 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1005048004636 Walker A/P-loop; other site 1005048004637 ATP binding site [chemical binding]; other site 1005048004638 Q-loop/lid; other site 1005048004639 ABC transporter signature motif; other site 1005048004640 Walker B; other site 1005048004641 D-loop; other site 1005048004642 H-loop/switch region; other site 1005048004643 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 1005048004644 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1005048004645 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1005048004646 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1005048004647 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 1005048004648 ATP binding site [chemical binding]; other site 1005048004649 Mg++ binding site [ion binding]; other site 1005048004650 motif III; other site 1005048004651 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 1005048004652 nucleotide binding region [chemical binding]; other site 1005048004653 ATP-binding site [chemical binding]; other site 1005048004654 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 1005048004655 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1005048004656 NAD binding site [chemical binding]; other site 1005048004657 homotetramer interface [polypeptide binding]; other site 1005048004658 homodimer interface [polypeptide binding]; other site 1005048004659 substrate binding site [chemical binding]; other site 1005048004660 active site 1005048004661 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 1005048004662 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048004663 catalytic residue [active] 1005048004664 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 1005048004665 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1005048004666 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048004667 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1005048004668 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1005048004669 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1005048004670 RNA/DNA hybrid binding site [nucleotide binding]; other site 1005048004671 active site 1005048004672 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1005048004673 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 1005048004674 active site 1005048004675 catalytic site [active] 1005048004676 substrate binding site [chemical binding]; other site 1005048004677 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1005048004678 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1005048004679 putative NAD(P) binding site [chemical binding]; other site 1005048004680 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 1005048004681 S-adenosylmethionine binding site [chemical binding]; other site 1005048004682 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 1005048004683 DNA-binding site [nucleotide binding]; DNA binding site 1005048004684 RNA-binding motif; other site 1005048004685 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 1005048004686 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048004687 Coenzyme A binding pocket [chemical binding]; other site 1005048004688 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1005048004689 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048004690 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 1005048004691 DNA-binding site [nucleotide binding]; DNA binding site 1005048004692 RNA-binding motif; other site 1005048004693 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1005048004694 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1005048004695 active site 1005048004696 homotetramer interface [polypeptide binding]; other site 1005048004697 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1005048004698 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1005048004699 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1005048004700 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1005048004701 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1005048004702 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1005048004703 methionine sulfoxide reductase A; Provisional; Region: PRK13014 1005048004704 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1005048004705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048004706 Coenzyme A binding pocket [chemical binding]; other site 1005048004707 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1005048004708 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1005048004709 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 1005048004710 dimer interface [polypeptide binding]; other site 1005048004711 ADP-ribose binding site [chemical binding]; other site 1005048004712 active site 1005048004713 nudix motif; other site 1005048004714 metal binding site [ion binding]; metal-binding site 1005048004715 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005048004716 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1005048004717 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005048004718 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1005048004719 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048004720 Coenzyme A binding pocket [chemical binding]; other site 1005048004721 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1005048004722 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1005048004723 DNA binding residues [nucleotide binding] 1005048004724 dimer interface [polypeptide binding]; other site 1005048004725 [2Fe-2S] cluster binding site [ion binding]; other site 1005048004726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048004727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048004728 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 1005048004729 active site 1005048004730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048004731 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048004732 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048004733 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1005048004734 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048004735 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1005048004736 Predicted transcriptional regulator [Transcription]; Region: COG3636 1005048004737 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1005048004738 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1005048004739 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1005048004740 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 1005048004741 active site 1005048004742 dimer interface [polypeptide binding]; other site 1005048004743 motif 1; other site 1005048004744 motif 2; other site 1005048004745 motif 3; other site 1005048004746 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 1005048004747 anticodon binding site; other site 1005048004748 translation initiation factor IF-3; Region: infC; TIGR00168 1005048004749 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1005048004750 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1005048004751 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1005048004752 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1005048004753 23S rRNA binding site [nucleotide binding]; other site 1005048004754 L21 binding site [polypeptide binding]; other site 1005048004755 L13 binding site [polypeptide binding]; other site 1005048004756 potential frameshift: common BLAST hit: gi|152979826|ref|YP_001353181.1| phenylalanyl-tRNA synthetase subunit alpha 1005048004757 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1005048004758 potential frameshift: common BLAST hit: gi|300311298|ref|YP_003775390.1| phenylalanyl-tRNA synthetase subunit alpha 1005048004759 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 1005048004760 motif 1; other site 1005048004761 dimer interface [polypeptide binding]; other site 1005048004762 active site 1005048004763 motif 2; other site 1005048004764 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 1005048004765 active site 1005048004766 motif 3; other site 1005048004767 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1005048004768 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 1005048004769 putative tRNA-binding site [nucleotide binding]; other site 1005048004770 B3/4 domain; Region: B3_4; pfam03483 1005048004771 tRNA synthetase B5 domain; Region: B5; smart00874 1005048004772 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 1005048004773 dimer interface [polypeptide binding]; other site 1005048004774 motif 1; other site 1005048004775 motif 3; other site 1005048004776 motif 2; other site 1005048004777 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1005048004778 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 1005048004779 IHF - DNA interface [nucleotide binding]; other site 1005048004780 IHF dimer interface [polypeptide binding]; other site 1005048004781 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1005048004782 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1005048004783 DNA binding residues [nucleotide binding] 1005048004784 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048004785 active site 1005048004786 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048004787 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1005048004788 potential catalytic triad [active] 1005048004789 conserved cys residue [active] 1005048004790 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1005048004791 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1005048004792 dimer interface [polypeptide binding]; other site 1005048004793 NAD(P) binding site [chemical binding]; other site 1005048004794 substrate binding site [chemical binding]; other site 1005048004795 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1005048004796 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1005048004797 dimer interface [polypeptide binding]; other site 1005048004798 active site 1005048004799 metal binding site [ion binding]; metal-binding site 1005048004800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048004801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048004802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048004803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004804 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 1005048004805 putative substrate binding pocket [chemical binding]; other site 1005048004806 putative dimerization interface [polypeptide binding]; other site 1005048004807 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048004808 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1005048004809 active site 1005048004810 FMN binding site [chemical binding]; other site 1005048004811 substrate binding site [chemical binding]; other site 1005048004812 homotetramer interface [polypeptide binding]; other site 1005048004813 catalytic residue [active] 1005048004814 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1005048004815 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048004816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048004817 Walker A/P-loop; other site 1005048004818 ATP binding site [chemical binding]; other site 1005048004819 Q-loop/lid; other site 1005048004820 ABC transporter signature motif; other site 1005048004821 Walker B; other site 1005048004822 D-loop; other site 1005048004823 H-loop/switch region; other site 1005048004824 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1005048004825 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1005048004826 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1005048004827 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1005048004828 LysR family transcriptional regulator; Provisional; Region: PRK14997 1005048004829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004830 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 1005048004831 dimerization interface [polypeptide binding]; other site 1005048004832 azoreductase; Reviewed; Region: PRK00170 1005048004833 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048004834 2-isopropylmalate synthase; Validated; Region: PRK03739 1005048004835 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1005048004836 active site 1005048004837 catalytic residues [active] 1005048004838 metal binding site [ion binding]; metal-binding site 1005048004839 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1005048004840 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005048004841 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048004842 Coenzyme A binding pocket [chemical binding]; other site 1005048004843 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048004844 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1005048004845 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 1005048004846 putative substrate translocation pore; other site 1005048004847 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 1005048004848 active site 1005048004849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004850 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1005048004851 putative dimerization interface [polypeptide binding]; other site 1005048004852 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1005048004853 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1005048004854 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1005048004855 DNA binding residues [nucleotide binding] 1005048004856 putative dimer interface [polypeptide binding]; other site 1005048004857 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 1005048004858 active site 1005048004859 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048004860 catalytic tetrad [active] 1005048004861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048004862 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 1005048004863 active site 1005048004864 phosphorylation site [posttranslational modification] 1005048004865 intermolecular recognition site; other site 1005048004866 dimerization interface [polypeptide binding]; other site 1005048004867 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 1005048004868 DNA binding site [nucleotide binding] 1005048004869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048004870 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 1005048004871 dimer interface [polypeptide binding]; other site 1005048004872 phosphorylation site [posttranslational modification] 1005048004873 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 1005048004874 ATP binding site [chemical binding]; other site 1005048004875 G-X-G motif; other site 1005048004876 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 1005048004877 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048004878 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 1005048004879 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 1005048004880 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 1005048004881 dimer interface [polypeptide binding]; other site 1005048004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048004883 catalytic residue [active] 1005048004884 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1005048004885 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1005048004886 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 1005048004887 homodimer interface [polypeptide binding]; other site 1005048004888 substrate-cofactor binding pocket; other site 1005048004889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048004890 catalytic residue [active] 1005048004891 Tetratrico peptide repeat; Region: TPR_5; pfam12688 1005048004892 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1005048004893 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 1005048004894 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1005048004895 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1005048004896 active site 1005048004897 Zn binding site [ion binding]; other site 1005048004898 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1005048004899 CVNH domain; Region: CVNH; pfam08881 1005048004900 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1005048004901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048004902 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 1005048004903 putative dimerization interface [polypeptide binding]; other site 1005048004904 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1005048004905 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 1005048004906 THF binding site; other site 1005048004907 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 1005048004908 substrate binding site [chemical binding]; other site 1005048004909 THF binding site; other site 1005048004910 zinc-binding site [ion binding]; other site 1005048004911 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1005048004912 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1005048004913 oligomer interface [polypeptide binding]; other site 1005048004914 active site residues [active] 1005048004915 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1005048004916 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1005048004917 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 1005048004918 conserved gate region; other site 1005048004919 ABC-ATPase subunit interface; other site 1005048004920 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1005048004921 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1005048004922 Walker A/P-loop; other site 1005048004923 ATP binding site [chemical binding]; other site 1005048004924 Q-loop/lid; other site 1005048004925 ABC transporter signature motif; other site 1005048004926 Walker B; other site 1005048004927 D-loop; other site 1005048004928 H-loop/switch region; other site 1005048004929 NIL domain; Region: NIL; pfam09383 1005048004930 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 1005048004931 CoenzymeA binding site [chemical binding]; other site 1005048004932 subunit interaction site [polypeptide binding]; other site 1005048004933 PHB binding site; other site 1005048004934 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1005048004935 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048004936 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 1005048004937 N-terminal plug; other site 1005048004938 ligand-binding site [chemical binding]; other site 1005048004939 isocitrate lyase; Provisional; Region: PRK15063 1005048004940 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 1005048004941 tetramer interface [polypeptide binding]; other site 1005048004942 active site 1005048004943 Mg2+/Mn2+ binding site [ion binding]; other site 1005048004944 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048004945 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 1005048004946 putative DNA binding site [nucleotide binding]; other site 1005048004947 putative Zn2+ binding site [ion binding]; other site 1005048004948 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048004949 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 1005048004950 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1005048004951 zinc binding site [ion binding]; other site 1005048004952 putative ligand binding site [chemical binding]; other site 1005048004953 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 1005048004954 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048004955 TM-ABC transporter signature motif; other site 1005048004956 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1005048004957 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048004958 Walker A/P-loop; other site 1005048004959 ATP binding site [chemical binding]; other site 1005048004960 Q-loop/lid; other site 1005048004961 ABC transporter signature motif; other site 1005048004962 Walker B; other site 1005048004963 D-loop; other site 1005048004964 H-loop/switch region; other site 1005048004965 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1005048004966 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1005048004967 NAD(P) binding pocket [chemical binding]; other site 1005048004968 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1005048004969 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1005048004970 dimer interface [polypeptide binding]; other site 1005048004971 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1005048004972 active site 1005048004973 Fe binding site [ion binding]; other site 1005048004974 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048004975 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 1005048004976 trimer interface [polypeptide binding]; other site 1005048004977 eyelet of channel; other site 1005048004978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048004979 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1005048004980 Walker A/P-loop; other site 1005048004981 ATP binding site [chemical binding]; other site 1005048004982 Q-loop/lid; other site 1005048004983 ABC transporter signature motif; other site 1005048004984 Walker B; other site 1005048004985 D-loop; other site 1005048004986 H-loop/switch region; other site 1005048004987 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1005048004988 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 1005048004989 dimer interface [polypeptide binding]; other site 1005048004990 conserved gate region; other site 1005048004991 putative PBP binding loops; other site 1005048004992 ABC-ATPase subunit interface; other site 1005048004993 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048004994 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 1005048004995 substrate binding pocket [chemical binding]; other site 1005048004996 membrane-bound complex binding site; other site 1005048004997 hinge residues; other site 1005048004998 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1005048004999 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 1005048005000 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 1005048005001 Cl- selectivity filter; other site 1005048005002 Cl- binding residues [ion binding]; other site 1005048005003 pore gating glutamate residue; other site 1005048005004 dimer interface [polypeptide binding]; other site 1005048005005 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 1005048005006 Predicted membrane protein [Function unknown]; Region: COG2261 1005048005007 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1005048005008 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1005048005009 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1005048005010 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1005048005011 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048005012 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 1005048005013 N-terminal plug; other site 1005048005014 ligand-binding site [chemical binding]; other site 1005048005015 Phosphotransferase enzyme family; Region: APH; pfam01636 1005048005016 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1005048005017 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1005048005018 Fimbrial protein; Region: Fimbrial; cl01416 1005048005019 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1005048005020 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005048005021 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1005048005022 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005048005023 PapC N-terminal domain; Region: PapC_N; pfam13954 1005048005024 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005048005025 PapC C-terminal domain; Region: PapC_C; pfam13953 1005048005026 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005048005027 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1005048005028 substrate binding site [chemical binding]; other site 1005048005029 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1005048005030 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1005048005031 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1005048005032 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1005048005033 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 1005048005034 C-terminal domain interface [polypeptide binding]; other site 1005048005035 GSH binding site (G-site) [chemical binding]; other site 1005048005036 dimer interface [polypeptide binding]; other site 1005048005037 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1005048005038 N-terminal domain interface [polypeptide binding]; other site 1005048005039 putative dimer interface [polypeptide binding]; other site 1005048005040 active site 1005048005041 methionine aminotransferase; Validated; Region: PRK09082 1005048005042 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 1005048005043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048005044 homodimer interface [polypeptide binding]; other site 1005048005045 catalytic residue [active] 1005048005046 PIN domain; Region: PIN_3; pfam13470 1005048005047 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1005048005048 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048005049 hypothetical protein; Validated; Region: PRK02101 1005048005050 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1005048005051 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 1005048005052 tetramer interface [polypeptide binding]; other site 1005048005053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048005054 catalytic residue [active] 1005048005055 triosephosphate isomerase; Provisional; Region: PRK14567 1005048005056 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 1005048005057 substrate binding site [chemical binding]; other site 1005048005058 dimer interface [polypeptide binding]; other site 1005048005059 catalytic triad [active] 1005048005060 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1005048005061 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1005048005062 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1005048005063 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1005048005064 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1005048005065 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1005048005066 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1005048005067 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1005048005068 putative dimer interface [polypeptide binding]; other site 1005048005069 [2Fe-2S] cluster binding site [ion binding]; other site 1005048005070 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1005048005071 SLBB domain; Region: SLBB; pfam10531 1005048005072 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1005048005073 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1005048005074 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 1005048005075 catalytic loop [active] 1005048005076 iron binding site [ion binding]; other site 1005048005077 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1005048005078 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 1005048005079 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1005048005080 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1005048005081 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1005048005082 4Fe-4S binding domain; Region: Fer4; pfam00037 1005048005083 4Fe-4S binding domain; Region: Fer4; pfam00037 1005048005084 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1005048005085 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1005048005086 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1005048005087 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1005048005088 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1005048005089 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1005048005090 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1005048005091 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1005048005092 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1005048005093 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1005048005094 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1005048005095 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 1005048005096 dimer interface [polypeptide binding]; other site 1005048005097 ADP-ribose binding site [chemical binding]; other site 1005048005098 active site 1005048005099 nudix motif; other site 1005048005100 metal binding site [ion binding]; metal-binding site 1005048005101 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1005048005102 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1005048005103 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 1005048005104 active site 1005048005105 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 1005048005106 PAS domain; Region: PAS_9; pfam13426 1005048005107 putative active site [active] 1005048005108 heme pocket [chemical binding]; other site 1005048005109 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 1005048005110 DNA binding residues [nucleotide binding] 1005048005111 dimerization interface [polypeptide binding]; other site 1005048005112 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1005048005113 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1005048005114 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1005048005115 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1005048005116 NodB motif; other site 1005048005117 active site 1005048005118 catalytic site [active] 1005048005119 metal binding site [ion binding]; metal-binding site 1005048005120 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048005121 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1005048005122 homotrimer interaction site [polypeptide binding]; other site 1005048005123 putative active site [active] 1005048005124 HD domain; Region: HD_4; pfam13328 1005048005125 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1005048005126 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1005048005127 synthetase active site [active] 1005048005128 NTP binding site [chemical binding]; other site 1005048005129 metal binding site [ion binding]; metal-binding site 1005048005130 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 1005048005131 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1005048005132 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1005048005133 Fic/DOC family; Region: Fic; pfam02661 1005048005134 Predicted chitinase [General function prediction only]; Region: COG3179 1005048005135 catalytic residue [active] 1005048005136 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1005048005137 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1005048005138 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005048005139 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1005048005140 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 1005048005141 S-adenosylmethionine binding site [chemical binding]; other site 1005048005142 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 1005048005143 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048005144 substrate binding pocket [chemical binding]; other site 1005048005145 membrane-bound complex binding site; other site 1005048005146 hinge residues; other site 1005048005147 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 1005048005148 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 1005048005149 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; cl17355 1005048005150 DNA binding site [nucleotide binding] 1005048005151 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048005152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048005153 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 1005048005154 dimerization interface [polypeptide binding]; other site 1005048005155 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1005048005156 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 1005048005157 motif II; other site 1005048005158 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1005048005159 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 1005048005160 dimer interface [polypeptide binding]; other site 1005048005161 active site 1005048005162 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048005163 substrate binding site [chemical binding]; other site 1005048005164 catalytic residue [active] 1005048005165 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 1005048005166 homotrimer interaction site [polypeptide binding]; other site 1005048005167 putative active site [active] 1005048005168 Ligand-binding SRPBCC domain of Streptococcus mutans Smu.440 and related proteins; Region: SRPBCC_Smu440-like; cd08862 1005048005169 putative hydrophobic ligand binding site [chemical binding]; other site 1005048005170 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1005048005171 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1005048005172 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048005173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048005174 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048005175 dimerization interface [polypeptide binding]; other site 1005048005176 substrate binding pocket [chemical binding]; other site 1005048005177 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005048005178 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048005179 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048005180 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1005048005181 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 1005048005182 Walker A motif; other site 1005048005183 ATP binding site [chemical binding]; other site 1005048005184 Walker B motif; other site 1005048005185 arginine finger; other site 1005048005186 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048005187 Spore Coat Protein U domain; Region: SCPU; pfam05229 1005048005188 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1005048005189 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048005190 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 1005048005191 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048005192 DinB superfamily; Region: DinB_2; pfam12867 1005048005193 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1005048005194 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 1005048005195 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1005048005196 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1005048005197 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1005048005198 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 1005048005199 N-terminal plug; other site 1005048005200 ligand-binding site [chemical binding]; other site 1005048005201 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 1005048005202 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048005203 active site 1005048005204 catalytic tetrad [active] 1005048005205 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; cl00470 1005048005206 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1005048005207 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1005048005208 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1005048005209 ethanolamine permease; Region: 2A0305; TIGR00908 1005048005210 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 1005048005211 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1005048005212 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005048005213 NAD(P) binding site [chemical binding]; other site 1005048005214 catalytic residues [active] 1005048005215 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1005048005216 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1005048005217 active site 1005048005218 nucleophile elbow; other site 1005048005219 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005048005220 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048005221 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1005048005222 MarR family; Region: MarR_2; cl17246 1005048005223 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005048005224 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 1005048005225 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1005048005226 putative substrate translocation pore; other site 1005048005227 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 1005048005228 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1005048005229 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048005230 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048005231 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048005232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048005233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048005234 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1005048005235 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1005048005236 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1005048005237 active site 1005048005238 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1005048005239 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1005048005240 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1005048005241 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048005242 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1005048005243 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 1005048005244 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 1005048005245 Subunit I/III interface [polypeptide binding]; other site 1005048005246 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 1005048005247 Subunit I/III interface [polypeptide binding]; other site 1005048005248 Predicted small integral membrane protein [Function unknown]; Region: COG5605 1005048005249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 1005048005250 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 1005048005251 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1005048005252 transmembrane helices; other site 1005048005253 heat shock protein HtpX; Provisional; Region: PRK05457 1005048005254 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1005048005255 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 1005048005256 Peptidase family M50; Region: Peptidase_M50; pfam02163 1005048005257 active site 1005048005258 putative substrate binding region [chemical binding]; other site 1005048005259 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1005048005260 active site 1005048005261 HIGH motif; other site 1005048005262 dimer interface [polypeptide binding]; other site 1005048005263 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048005264 active site 1005048005265 KMSKS motif; other site 1005048005266 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 1005048005267 S-adenosylmethionine binding site [chemical binding]; other site 1005048005268 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1005048005269 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1005048005270 dimer interface [polypeptide binding]; other site 1005048005271 active site 1005048005272 catalytic residue [active] 1005048005273 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1005048005274 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1005048005275 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1005048005276 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1005048005277 Cupin-like domain; Region: Cupin_8; pfam13621 1005048005278 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1005048005279 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005048005280 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1005048005281 MutS domain I; Region: MutS_I; pfam01624 1005048005282 MutS domain II; Region: MutS_II; pfam05188 1005048005283 MutS domain III; Region: MutS_III; pfam05192 1005048005284 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1005048005285 Walker A/P-loop; other site 1005048005286 ATP binding site [chemical binding]; other site 1005048005287 Q-loop/lid; other site 1005048005288 ABC transporter signature motif; other site 1005048005289 Walker B; other site 1005048005290 D-loop; other site 1005048005291 H-loop/switch region; other site 1005048005292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048005293 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1005048005294 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1005048005295 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 1005048005296 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 1005048005297 homodimer interface [polypeptide binding]; other site 1005048005298 substrate-cofactor binding pocket; other site 1005048005299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048005300 catalytic residue [active] 1005048005301 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048005302 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 1005048005303 putative DNA binding site [nucleotide binding]; other site 1005048005304 putative Zn2+ binding site [ion binding]; other site 1005048005305 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048005306 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 1005048005307 active site 1005048005308 catalytic triad [active] 1005048005309 oxyanion hole [active] 1005048005310 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048005311 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1005048005312 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1005048005313 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1005048005314 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048005315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048005316 SnoaL-like domain; Region: SnoaL_2; pfam12680 1005048005317 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 1005048005318 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1005048005319 active site residue [active] 1005048005320 selenophosphate synthetase; Provisional; Region: PRK00943 1005048005321 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 1005048005322 dimerization interface [polypeptide binding]; other site 1005048005323 putative ATP binding site [chemical binding]; other site 1005048005324 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1005048005325 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1005048005326 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1005048005327 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048005328 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 1005048005329 N-terminal plug; other site 1005048005330 ligand-binding site [chemical binding]; other site 1005048005331 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1005048005332 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1005048005333 dimer interface [polypeptide binding]; other site 1005048005334 active site 1005048005335 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048005336 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1005048005337 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 1005048005338 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1005048005339 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005048005340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048005341 DNA-binding site [nucleotide binding]; DNA binding site 1005048005342 FCD domain; Region: FCD; pfam07729 1005048005343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1005048005344 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1005048005345 DctM-like transporters; Region: DctM; pfam06808 1005048005346 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1005048005347 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1005048005348 Coenzyme A transferase; Region: CoA_trans; cl17247 1005048005349 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 1005048005350 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1005048005351 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1005048005352 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 1005048005353 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1005048005354 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 1005048005355 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048005356 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048005357 putative ligand binding site [chemical binding]; other site 1005048005358 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1005048005359 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1005048005360 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 1005048005361 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1005048005362 Putative glucoamylase; Region: Glycoamylase; pfam10091 1005048005363 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1005048005364 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1005048005365 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1005048005366 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1005048005367 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1005048005368 Ferritin-like domain; Region: Ferritin; pfam00210 1005048005369 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1005048005370 dinuclear metal binding motif [ion binding]; other site 1005048005371 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1005048005372 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1005048005373 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1005048005374 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1005048005375 phosphoglucomutase; Validated; Region: PRK07564 1005048005376 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1005048005377 active site 1005048005378 substrate binding site [chemical binding]; other site 1005048005379 metal binding site [ion binding]; metal-binding site 1005048005380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 1005048005381 Putative glucoamylase; Region: Glycoamylase; pfam10091 1005048005382 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1005048005383 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 1005048005384 TPP-binding site [chemical binding]; other site 1005048005385 dimer interface [polypeptide binding]; other site 1005048005386 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 1005048005387 PYR/PP interface [polypeptide binding]; other site 1005048005388 dimer interface [polypeptide binding]; other site 1005048005389 TPP binding site [chemical binding]; other site 1005048005390 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005048005391 CsbD-like; Region: CsbD; pfam05532 1005048005392 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1005048005393 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1005048005394 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1005048005395 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1005048005396 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1005048005397 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005048005398 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005048005399 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1005048005400 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005048005401 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005048005402 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005048005403 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005048005404 Helix-turn-helix domain; Region: HTH_17; pfam12728 1005048005405 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1005048005406 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1005048005407 putative active site [active] 1005048005408 Zn binding site [ion binding]; other site 1005048005409 Pirin-related protein [General function prediction only]; Region: COG1741 1005048005410 Pirin; Region: Pirin; pfam02678 1005048005411 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1005048005412 LysR family transcriptional regulator; Provisional; Region: PRK14997 1005048005413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048005414 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1005048005415 putative effector binding pocket; other site 1005048005416 putative dimerization interface [polypeptide binding]; other site 1005048005417 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1005048005418 aconitate hydratase; Validated; Region: PRK09277 1005048005419 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1005048005420 substrate binding site [chemical binding]; other site 1005048005421 ligand binding site [chemical binding]; other site 1005048005422 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 1005048005423 substrate binding site [chemical binding]; other site 1005048005424 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1005048005425 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1005048005426 malate dehydrogenase; Provisional; Region: PRK05442 1005048005427 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1005048005428 NAD(P) binding site [chemical binding]; other site 1005048005429 dimer interface [polypeptide binding]; other site 1005048005430 malate binding site [chemical binding]; other site 1005048005431 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1005048005432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048005433 DNA-binding site [nucleotide binding]; DNA binding site 1005048005434 UTRA domain; Region: UTRA; pfam07702 1005048005435 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 1005048005436 Iron-sulfur protein interface; other site 1005048005437 proximal quinone binding site [chemical binding]; other site 1005048005438 SdhD (CybS) interface [polypeptide binding]; other site 1005048005439 proximal heme binding site [chemical binding]; other site 1005048005440 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 1005048005441 SdhC subunit interface [polypeptide binding]; other site 1005048005442 proximal heme binding site [chemical binding]; other site 1005048005443 cardiolipin binding site; other site 1005048005444 Iron-sulfur protein interface; other site 1005048005445 proximal quinone binding site [chemical binding]; other site 1005048005446 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1005048005447 L-aspartate oxidase; Provisional; Region: PRK06175 1005048005448 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1005048005449 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1005048005450 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1005048005451 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1005048005452 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 1005048005453 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1005048005454 dimer interface [polypeptide binding]; other site 1005048005455 active site 1005048005456 citrylCoA binding site [chemical binding]; other site 1005048005457 NADH binding [chemical binding]; other site 1005048005458 cationic pore residues; other site 1005048005459 oxalacetate/citrate binding site [chemical binding]; other site 1005048005460 coenzyme A binding site [chemical binding]; other site 1005048005461 catalytic triad [active] 1005048005462 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1005048005463 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 1005048005464 TPP-binding site [chemical binding]; other site 1005048005465 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1005048005466 dimer interface [polypeptide binding]; other site 1005048005467 PYR/PP interface [polypeptide binding]; other site 1005048005468 TPP binding site [chemical binding]; other site 1005048005469 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1005048005470 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 1005048005471 E3 interaction surface; other site 1005048005472 lipoyl attachment site [posttranslational modification]; other site 1005048005473 e3 binding domain; Region: E3_binding; pfam02817 1005048005474 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1005048005475 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1005048005476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048005477 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1005048005478 Predicted ATPase [General function prediction only]; Region: COG1485 1005048005479 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 1005048005480 active site 1005048005481 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1005048005482 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1005048005483 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 1005048005484 nucleotide binding region [chemical binding]; other site 1005048005485 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1005048005486 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1005048005487 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1005048005488 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 1005048005489 N- and C-terminal domain interface [polypeptide binding]; other site 1005048005490 putative active site [active] 1005048005491 MgATP binding site [chemical binding]; other site 1005048005492 catalytic site [active] 1005048005493 metal binding site [ion binding]; metal-binding site 1005048005494 putative xylulose binding site [chemical binding]; other site 1005048005495 putative homodimer interface [polypeptide binding]; other site 1005048005496 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048005497 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048005498 putative ligand binding site [chemical binding]; other site 1005048005499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1005048005500 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048005501 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1005048005502 putative active site [active] 1005048005503 putative metal binding site [ion binding]; other site 1005048005504 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048005505 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 1005048005506 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1005048005507 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048005508 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1005048005509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048005510 NAD(P) binding site [chemical binding]; other site 1005048005511 active site 1005048005512 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1005048005513 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 1005048005514 binding surface 1005048005515 TPR motif; other site 1005048005516 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1005048005517 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 1005048005518 RNA binding surface [nucleotide binding]; other site 1005048005519 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005048005520 active site 1005048005521 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1005048005522 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1005048005523 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1005048005524 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1005048005525 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 1005048005526 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1005048005527 NAD(P) binding site [chemical binding]; other site 1005048005528 homotetramer interface [polypeptide binding]; other site 1005048005529 homodimer interface [polypeptide binding]; other site 1005048005530 active site 1005048005531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1005048005532 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1005048005533 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1005048005534 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1005048005535 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1005048005536 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1005048005537 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 1005048005538 FeS/SAM binding site; other site 1005048005539 cystathionine beta-lyase; Provisional; Region: PRK07050 1005048005540 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 1005048005541 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048005542 catalytic residue [active] 1005048005543 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 1005048005544 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1005048005545 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048005546 Walker A/P-loop; other site 1005048005547 ATP binding site [chemical binding]; other site 1005048005548 Q-loop/lid; other site 1005048005549 ABC transporter signature motif; other site 1005048005550 Walker B; other site 1005048005551 D-loop; other site 1005048005552 H-loop/switch region; other site 1005048005553 Cupin-like domain; Region: Cupin_8; pfam13621 1005048005554 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1005048005555 active site 1005048005556 metal binding site [ion binding]; metal-binding site 1005048005557 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1005048005558 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 1005048005559 S-adenosylmethionine binding site [chemical binding]; other site 1005048005560 Predicted membrane protein [Function unknown]; Region: COG3671 1005048005561 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1005048005562 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 1005048005563 motif II; other site 1005048005564 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1005048005565 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1005048005566 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 1005048005567 ATP binding site [chemical binding]; other site 1005048005568 putative Mg++ binding site [ion binding]; other site 1005048005569 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 1005048005570 nucleotide binding region [chemical binding]; other site 1005048005571 ATP-binding site [chemical binding]; other site 1005048005572 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1005048005573 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1005048005574 substrate binding site; other site 1005048005575 dimer interface; other site 1005048005576 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 1005048005577 homotrimer interaction site [polypeptide binding]; other site 1005048005578 zinc binding site [ion binding]; other site 1005048005579 CDP-binding sites; other site 1005048005580 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048005581 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 1005048005582 dimerization interface [polypeptide binding]; other site 1005048005583 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 1005048005584 dimer interface [polypeptide binding]; other site 1005048005585 phosphorylation site [posttranslational modification] 1005048005586 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 1005048005587 ATP binding site [chemical binding]; other site 1005048005588 Mg2+ binding site [ion binding]; other site 1005048005589 G-X-G motif; other site 1005048005590 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1005048005591 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 1005048005592 active site 1005048005593 phosphorylation site [posttranslational modification] 1005048005594 intermolecular recognition site; other site 1005048005595 dimerization interface [polypeptide binding]; other site 1005048005596 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 1005048005597 DNA binding site [nucleotide binding] 1005048005598 Fe2+ transport protein; Region: Iron_transport; pfam10634 1005048005599 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1005048005600 Iron permease FTR1 family; Region: FTR1; cl00475 1005048005601 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1005048005602 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1005048005603 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1005048005604 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1005048005605 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 1005048005606 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048005607 active site 1005048005608 catalytic tetrad [active] 1005048005609 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 1005048005610 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048005611 putative substrate translocation pore; other site 1005048005612 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048005613 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 1005048005614 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 1005048005615 DNA-binding site [nucleotide binding]; DNA binding site 1005048005616 RNA-binding motif; other site 1005048005617 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048005618 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 1005048005619 putative ligand binding site [chemical binding]; other site 1005048005620 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048005621 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 1005048005622 TM-ABC transporter signature motif; other site 1005048005623 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048005624 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 1005048005625 TM-ABC transporter signature motif; other site 1005048005626 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048005627 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048005628 Walker A/P-loop; other site 1005048005629 ATP binding site [chemical binding]; other site 1005048005630 Q-loop/lid; other site 1005048005631 ABC transporter signature motif; other site 1005048005632 Walker B; other site 1005048005633 D-loop; other site 1005048005634 H-loop/switch region; other site 1005048005635 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048005636 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048005637 Walker A/P-loop; other site 1005048005638 ATP binding site [chemical binding]; other site 1005048005639 Q-loop/lid; other site 1005048005640 ABC transporter signature motif; other site 1005048005641 Walker B; other site 1005048005642 D-loop; other site 1005048005643 H-loop/switch region; other site 1005048005644 PAS domain S-box; Region: sensory_box; TIGR00229 1005048005645 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048005646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048005647 metal binding site [ion binding]; metal-binding site 1005048005648 active site 1005048005649 I-site; other site 1005048005650 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 1005048005651 Lysine efflux permease [General function prediction only]; Region: COG1279 1005048005652 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 1005048005653 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 1005048005654 CoenzymeA binding site [chemical binding]; other site 1005048005655 subunit interaction site [polypeptide binding]; other site 1005048005656 PHB binding site; other site 1005048005657 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048005658 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1005048005659 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1005048005660 NRDE protein; Region: NRDE; cl01315 1005048005661 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1005048005662 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1005048005663 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 1005048005664 YceG-like family; Region: YceG; pfam02618 1005048005665 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1005048005666 dimerization interface [polypeptide binding]; other site 1005048005667 thymidylate kinase; Validated; Region: tmk; PRK00698 1005048005668 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 1005048005669 TMP-binding site; other site 1005048005670 ATP-binding site [chemical binding]; other site 1005048005671 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1005048005672 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1005048005673 PilZ domain; Region: PilZ; cl01260 1005048005674 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1005048005675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048005676 Coenzyme A binding pocket [chemical binding]; other site 1005048005677 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 1005048005678 active site 1005048005679 dimerization interface [polypeptide binding]; other site 1005048005680 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1005048005681 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 1005048005682 FeS/SAM binding site; other site 1005048005683 HemN C-terminal domain; Region: HemN_C; pfam06969 1005048005684 PAS domain S-box; Region: sensory_box; TIGR00229 1005048005685 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 1005048005686 putative active site [active] 1005048005687 heme pocket [chemical binding]; other site 1005048005688 PAS fold; Region: PAS_4; pfam08448 1005048005689 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 1005048005690 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1005048005691 putative active site [active] 1005048005692 heme pocket [chemical binding]; other site 1005048005693 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 1005048005694 putative active site [active] 1005048005695 heme pocket [chemical binding]; other site 1005048005696 PAS fold; Region: PAS_4; pfam08448 1005048005697 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 1005048005698 putative active site [active] 1005048005699 heme pocket [chemical binding]; other site 1005048005700 PAS fold; Region: PAS_4; pfam08448 1005048005701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1005048005702 Histidine kinase; Region: HisKA_3; pfam07730 1005048005703 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 1005048005704 ATP binding site [chemical binding]; other site 1005048005705 Mg2+ binding site [ion binding]; other site 1005048005706 G-X-G motif; other site 1005048005707 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048005708 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 1005048005709 putative ADP-binding pocket [chemical binding]; other site 1005048005710 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 1005048005711 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1005048005712 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048005713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048005714 Walker A/P-loop; other site 1005048005715 ATP binding site [chemical binding]; other site 1005048005716 Q-loop/lid; other site 1005048005717 ABC transporter signature motif; other site 1005048005718 Walker B; other site 1005048005719 D-loop; other site 1005048005720 H-loop/switch region; other site 1005048005721 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1005048005722 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005048005723 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048005724 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048005725 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1005048005726 Alpha-L-arabinofuranosidase B, catalytic; Region: ArabFuran-catal; pfam09206 1005048005727 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 1005048005728 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 1005048005729 putative sugar binding sites [chemical binding]; other site 1005048005730 Q-X-W motif; other site 1005048005731 Staphylococcal nuclease homologues; Region: SNc; smart00318 1005048005732 Catalytic site; other site 1005048005733 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1005048005734 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1005048005735 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 1005048005736 motif II; other site 1005048005737 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1005048005738 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 1005048005739 Cl- selectivity filter; other site 1005048005740 Cl- binding residues [ion binding]; other site 1005048005741 pore gating glutamate residue; other site 1005048005742 dimer interface [polypeptide binding]; other site 1005048005743 FOG: CBS domain [General function prediction only]; Region: COG0517 1005048005744 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 1005048005745 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1005048005746 MarR family; Region: MarR_2; pfam12802 1005048005747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 1005048005748 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 1005048005749 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1005048005750 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1005048005751 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1005048005752 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048005753 active site 1005048005754 metal binding site [ion binding]; metal-binding site 1005048005755 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 1005048005756 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048005757 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 1005048005758 DNA binding residues [nucleotide binding] 1005048005759 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1005048005760 Putative zinc-finger; Region: zf-HC2; pfam13490 1005048005761 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048005762 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 1005048005763 C-terminal domain interface [polypeptide binding]; other site 1005048005764 GSH binding site (G-site) [chemical binding]; other site 1005048005765 dimer interface [polypeptide binding]; other site 1005048005766 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1005048005767 dimer interface [polypeptide binding]; other site 1005048005768 N-terminal domain interface [polypeptide binding]; other site 1005048005769 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048005770 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1005048005771 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 1005048005772 putative substrate translocation pore; other site 1005048005773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048005774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048005775 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1005048005776 dimerization interface [polypeptide binding]; other site 1005048005777 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1005048005778 FtsX-like permease family; Region: FtsX; pfam02687 1005048005779 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1005048005780 FtsX-like permease family; Region: FtsX; pfam02687 1005048005781 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005048005782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1005048005783 Walker A/P-loop; other site 1005048005784 ATP binding site [chemical binding]; other site 1005048005785 Q-loop/lid; other site 1005048005786 ABC transporter signature motif; other site 1005048005787 Walker B; other site 1005048005788 D-loop; other site 1005048005789 H-loop/switch region; other site 1005048005790 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1005048005791 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1005048005792 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005048005793 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 1005048005794 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 1005048005795 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048005796 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048005797 Cache domain; Region: Cache_1; pfam02743 1005048005798 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048005799 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048005800 metal binding site [ion binding]; metal-binding site 1005048005801 active site 1005048005802 I-site; other site 1005048005803 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1005048005804 conserved cys residue [active] 1005048005805 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048005806 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048005807 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048005808 Transposase; Region: HTH_Tnp_1; pfam01527 1005048005809 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005048005810 EamA-like transporter family; Region: EamA; pfam00892 1005048005811 EamA-like transporter family; Region: EamA; pfam00892 1005048005812 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1005048005813 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1005048005814 substrate binding site [chemical binding]; other site 1005048005815 ligand binding site [chemical binding]; other site 1005048005816 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1005048005817 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 1005048005818 substrate binding site [chemical binding]; other site 1005048005819 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1005048005820 tartrate dehydrogenase; Region: TTC; TIGR02089 1005048005821 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1005048005822 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1005048005823 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048005824 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1005048005825 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1005048005826 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1005048005827 dimerization interface 3.5A [polypeptide binding]; other site 1005048005828 active site 1005048005829 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 1005048005830 active site 1005048005831 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1005048005832 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 1005048005833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048005834 catalytic residue [active] 1005048005835 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 1005048005836 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1005048005837 substrate binding site [chemical binding]; other site 1005048005838 active site 1005048005839 catalytic residues [active] 1005048005840 heterodimer interface [polypeptide binding]; other site 1005048005841 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1005048005842 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1005048005843 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1005048005844 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048005845 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048005846 Sporulation related domain; Region: SPOR; pfam05036 1005048005847 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1005048005848 Colicin V production protein; Region: Colicin_V; pfam02674 1005048005849 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1005048005850 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 1005048005851 active site 1005048005852 tetramer interface [polypeptide binding]; other site 1005048005853 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048005854 active site 1005048005855 hypothetical protein; Provisional; Region: PRK05939 1005048005856 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 1005048005857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048005858 catalytic residue [active] 1005048005859 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1005048005860 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048005861 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048005862 Bacterial transcriptional repressor; Region: TetR; pfam13972 1005048005863 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1005048005864 UDP-glucose 4-epimerase; Region: PLN02240 1005048005865 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1005048005866 NAD binding site [chemical binding]; other site 1005048005867 homodimer interface [polypeptide binding]; other site 1005048005868 active site 1005048005869 substrate binding site [chemical binding]; other site 1005048005870 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1005048005871 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1005048005872 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1005048005873 putative acyl-acceptor binding pocket; other site 1005048005874 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1005048005875 acyl carrier protein; Provisional; Region: PRK05350 1005048005876 Predicted membrane protein [Function unknown]; Region: COG4648 1005048005877 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1005048005878 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048005879 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048005880 acyl-activating enzyme (AAE) consensus motif; other site 1005048005881 acyl-activating enzyme (AAE) consensus motif; other site 1005048005882 AMP binding site [chemical binding]; other site 1005048005883 active site 1005048005884 CoA binding site [chemical binding]; other site 1005048005885 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 1005048005886 active site 2 [active] 1005048005887 dimer interface [polypeptide binding]; other site 1005048005888 active site 1 [active] 1005048005889 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1005048005890 Ligand binding site; other site 1005048005891 Putative Catalytic site; other site 1005048005892 DXD motif; other site 1005048005893 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1005048005894 putative acyl-acceptor binding pocket; other site 1005048005895 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1005048005896 active sites [active] 1005048005897 tetramer interface [polypeptide binding]; other site 1005048005898 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 1005048005899 active site 1005048005900 Predicted exporter [General function prediction only]; Region: COG4258 1005048005901 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1005048005902 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1005048005903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048005904 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 1005048005905 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1005048005906 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 1005048005907 dimer interface [polypeptide binding]; other site 1005048005908 active site 1005048005909 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1005048005910 putative active site 1 [active] 1005048005911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048005912 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1005048005913 NAD(P) binding site [chemical binding]; other site 1005048005914 active site 1005048005915 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1005048005916 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 1005048005917 dimer interface [polypeptide binding]; other site 1005048005918 active site 1005048005919 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1005048005920 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1005048005921 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1005048005922 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 1005048005923 S-adenosylmethionine binding site [chemical binding]; other site 1005048005924 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1005048005925 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048005926 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048005927 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 1005048005928 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1005048005929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048005930 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1005048005931 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 1005048005932 DNA binding residues [nucleotide binding] 1005048005933 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1005048005934 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 1005048005935 S-adenosylmethionine binding site [chemical binding]; other site 1005048005936 YccA-like proteins; Region: YccA_like; cd10433 1005048005937 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1005048005938 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 1005048005939 active site 1005048005940 multimer interface [polypeptide binding]; other site 1005048005941 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1005048005942 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 1005048005943 FeS/SAM binding site; other site 1005048005944 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1005048005945 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 1005048005946 binding surface 1005048005947 TPR motif; other site 1005048005948 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 1005048005949 binding surface 1005048005950 TPR motif; other site 1005048005951 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1005048005952 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1005048005953 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1005048005954 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1005048005955 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 1005048005956 dimer interface [polypeptide binding]; other site 1005048005957 motif 1; other site 1005048005958 active site 1005048005959 motif 2; other site 1005048005960 motif 3; other site 1005048005961 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 1005048005962 anticodon binding site; other site 1005048005963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1005048005964 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1005048005965 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1005048005966 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1005048005967 Trp docking motif [polypeptide binding]; other site 1005048005968 active site 1005048005969 GTP-binding protein Der; Reviewed; Region: PRK00093 1005048005970 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1005048005971 G1 box; other site 1005048005972 GTP/Mg2+ binding site [chemical binding]; other site 1005048005973 Switch I region; other site 1005048005974 G2 box; other site 1005048005975 Switch II region; other site 1005048005976 G3 box; other site 1005048005977 G4 box; other site 1005048005978 G5 box; other site 1005048005979 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1005048005980 G1 box; other site 1005048005981 GTP/Mg2+ binding site [chemical binding]; other site 1005048005982 Switch I region; other site 1005048005983 G2 box; other site 1005048005984 G3 box; other site 1005048005985 Switch II region; other site 1005048005986 G4 box; other site 1005048005987 G5 box; other site 1005048005988 bacterial Hfq-like; Region: Hfq; cd01716 1005048005989 hexamer interface [polypeptide binding]; other site 1005048005990 Sm1 motif; other site 1005048005991 RNA binding site [nucleotide binding]; other site 1005048005992 Sm2 motif; other site 1005048005993 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1005048005994 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1005048005995 HflX GTPase family; Region: HflX; cd01878 1005048005996 G1 box; other site 1005048005997 GTP/Mg2+ binding site [chemical binding]; other site 1005048005998 Switch I region; other site 1005048005999 G2 box; other site 1005048006000 G3 box; other site 1005048006001 Switch II region; other site 1005048006002 G4 box; other site 1005048006003 G5 box; other site 1005048006004 HflK protein; Region: hflK; TIGR01933 1005048006005 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 1005048006006 HflC protein; Region: hflC; TIGR01932 1005048006007 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 1005048006008 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1005048006009 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 1005048006010 dimer interface [polypeptide binding]; other site 1005048006011 motif 1; other site 1005048006012 active site 1005048006013 motif 2; other site 1005048006014 motif 3; other site 1005048006015 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1005048006016 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 1005048006017 GDP-binding site [chemical binding]; other site 1005048006018 ACT binding site; other site 1005048006019 IMP binding site; other site 1005048006020 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1005048006021 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048006022 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005048006023 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005048006024 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005048006025 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1005048006026 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1005048006027 Metal-binding active site; metal-binding site 1005048006028 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1005048006029 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048006030 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048006031 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048006032 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048006033 TM-ABC transporter signature motif; other site 1005048006034 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048006035 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048006036 Walker A/P-loop; other site 1005048006037 ATP binding site [chemical binding]; other site 1005048006038 Q-loop/lid; other site 1005048006039 ABC transporter signature motif; other site 1005048006040 Walker B; other site 1005048006041 D-loop; other site 1005048006042 H-loop/switch region; other site 1005048006043 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048006044 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048006045 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048006046 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005048006047 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005048006048 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005048006049 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005048006050 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005048006051 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005048006052 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1005048006053 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1005048006054 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 1005048006055 putative active site [active] 1005048006056 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1005048006057 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1005048006058 putative ligand binding site [chemical binding]; other site 1005048006059 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048006060 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048006061 TM-ABC transporter signature motif; other site 1005048006062 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1005048006063 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048006064 Walker A/P-loop; other site 1005048006065 ATP binding site [chemical binding]; other site 1005048006066 Q-loop/lid; other site 1005048006067 ABC transporter signature motif; other site 1005048006068 Walker B; other site 1005048006069 D-loop; other site 1005048006070 H-loop/switch region; other site 1005048006071 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048006072 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1005048006073 substrate binding site [chemical binding]; other site 1005048006074 ATP binding site [chemical binding]; other site 1005048006075 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1005048006076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1005048006077 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1005048006078 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005048006079 PYR/PP interface [polypeptide binding]; other site 1005048006080 dimer interface [polypeptide binding]; other site 1005048006081 TPP binding site [chemical binding]; other site 1005048006082 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005048006083 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1005048006084 TPP-binding site; other site 1005048006085 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1005048006086 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1005048006087 The adenylation (A) domain of siderophore-synthesizing nonribosomal peptide synthetases (NRPS); Region: A_NRPS_SidN3_like; cd05918 1005048006088 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048006089 acyl-activating enzyme (AAE) consensus motif; other site 1005048006090 AMP binding site [chemical binding]; other site 1005048006091 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006092 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1005048006093 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1005048006094 putative trimer interface [polypeptide binding]; other site 1005048006095 putative CoA binding site [chemical binding]; other site 1005048006096 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1005048006097 putative trimer interface [polypeptide binding]; other site 1005048006098 putative CoA binding site [chemical binding]; other site 1005048006099 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 1005048006100 PAS fold; Region: PAS_3; pfam08447 1005048006101 putative active site [active] 1005048006102 heme pocket [chemical binding]; other site 1005048006103 PAS fold; Region: PAS_4; pfam08448 1005048006104 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 1005048006105 putative active site [active] 1005048006106 heme pocket [chemical binding]; other site 1005048006107 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048006108 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048006109 metal binding site [ion binding]; metal-binding site 1005048006110 active site 1005048006111 I-site; other site 1005048006112 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 1005048006113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1005048006114 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1005048006115 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 1005048006116 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1005048006117 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1005048006118 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1005048006119 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1005048006120 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 1005048006121 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1005048006122 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 1005048006123 substrate binding pocket [chemical binding]; other site 1005048006124 membrane-bound complex binding site; other site 1005048006125 hinge residues; other site 1005048006126 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1005048006127 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048006128 Walker A/P-loop; other site 1005048006129 ATP binding site [chemical binding]; other site 1005048006130 Q-loop/lid; other site 1005048006131 ABC transporter signature motif; other site 1005048006132 Walker B; other site 1005048006133 D-loop; other site 1005048006134 H-loop/switch region; other site 1005048006135 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048006136 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 1005048006137 dimer interface [polypeptide binding]; other site 1005048006138 conserved gate region; other site 1005048006139 putative PBP binding loops; other site 1005048006140 ABC-ATPase subunit interface; other site 1005048006141 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1005048006142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048006143 NAD(P) binding site [chemical binding]; other site 1005048006144 active site 1005048006145 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1005048006146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048006147 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048006148 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1005048006149 Autoinducer synthetase; Region: Autoind_synth; cl17404 1005048006150 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1005048006151 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 1005048006152 DNA binding residues [nucleotide binding] 1005048006153 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1005048006154 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 1005048006155 ATP binding site [chemical binding]; other site 1005048006156 Mg++ binding site [ion binding]; other site 1005048006157 motif III; other site 1005048006158 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 1005048006159 nucleotide binding region [chemical binding]; other site 1005048006160 ATP-binding site [chemical binding]; other site 1005048006161 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1005048006162 putative RNA binding site [nucleotide binding]; other site 1005048006163 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1005048006164 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048006165 putative metal binding site [ion binding]; other site 1005048006166 Chromate transporter; Region: Chromate_transp; pfam02417 1005048006167 Chromate transporter; Region: Chromate_transp; pfam02417 1005048006168 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1005048006169 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 1005048006170 S-adenosylmethionine binding site [chemical binding]; other site 1005048006171 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048006172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048006173 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048006174 dimerization interface [polypeptide binding]; other site 1005048006175 substrate binding pocket [chemical binding]; other site 1005048006176 Secretory lipase; Region: LIP; pfam03583 1005048006177 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1005048006178 mce related protein; Region: MCE; pfam02470 1005048006179 Permease; Region: Permease; cl00510 1005048006180 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1005048006181 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1005048006182 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1005048006183 proposed catalytic triad [active] 1005048006184 conserved cys residue [active] 1005048006185 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1005048006186 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1005048006187 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1005048006188 putative DNA binding site [nucleotide binding]; other site 1005048006189 putative homodimer interface [polypeptide binding]; other site 1005048006190 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1005048006191 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1005048006192 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1005048006193 active site 1005048006194 DNA binding site [nucleotide binding] 1005048006195 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 1005048006196 DNA binding site [nucleotide binding] 1005048006197 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 1005048006198 nucleotide binding site [chemical binding]; other site 1005048006199 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1005048006200 HNH endonuclease; Region: HNH_5; pfam14279 1005048006201 CsbD-like; Region: CsbD; pfam05532 1005048006202 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1005048006203 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048006204 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1005048006205 conserved cys residue [active] 1005048006206 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048006207 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1005048006208 conserved cys residue [active] 1005048006209 TPR repeat; Region: TPR_11; pfam13414 1005048006210 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 1005048006211 binding surface 1005048006212 TPR motif; other site 1005048006213 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1005048006214 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 1005048006215 binding surface 1005048006216 TPR motif; other site 1005048006217 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1005048006218 FOG: CBS domain [General function prediction only]; Region: COG0517 1005048006219 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 1005048006220 dimer interface [polypeptide binding]; other site 1005048006221 phosphorylation site [posttranslational modification] 1005048006222 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 1005048006223 ATP binding site [chemical binding]; other site 1005048006224 Mg2+ binding site [ion binding]; other site 1005048006225 G-X-G motif; other site 1005048006226 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048006227 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 1005048006228 active site 1005048006229 phosphorylation site [posttranslational modification] 1005048006230 intermolecular recognition site; other site 1005048006231 dimerization interface [polypeptide binding]; other site 1005048006232 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1005048006233 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1005048006234 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1005048006235 active site 1005048006236 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1005048006237 DNA binding residues [nucleotide binding] 1005048006238 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 1005048006239 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048006240 active site 1005048006241 phosphorylation site [posttranslational modification] 1005048006242 intermolecular recognition site; other site 1005048006243 dimerization interface [polypeptide binding]; other site 1005048006244 polysaccharide export protein Wza; Provisional; Region: PRK15078 1005048006245 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1005048006246 SLBB domain; Region: SLBB; pfam10531 1005048006247 SLBB domain; Region: SLBB; pfam10531 1005048006248 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1005048006249 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1005048006250 active site 1005048006251 tyrosine kinase; Provisional; Region: PRK11519 1005048006252 Chain length determinant protein; Region: Wzz; pfam02706 1005048006253 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1005048006254 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1005048006255 P loop; other site 1005048006256 Nucleotide binding site [chemical binding]; other site 1005048006257 DTAP/Switch II; other site 1005048006258 Switch I; other site 1005048006259 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1005048006260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048006261 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 1005048006262 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1005048006263 active site 1005048006264 tetramer interface; other site 1005048006265 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1005048006266 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 1005048006267 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1005048006268 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1005048006269 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1005048006270 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1005048006271 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1005048006272 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 1005048006273 trimer interface [polypeptide binding]; other site 1005048006274 oxyanion hole (OAH) forming residues; other site 1005048006275 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1005048006276 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1005048006277 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005048006278 PYR/PP interface [polypeptide binding]; other site 1005048006279 dimer interface [polypeptide binding]; other site 1005048006280 TPP binding site [chemical binding]; other site 1005048006281 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005048006282 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1005048006283 TPP-binding site; other site 1005048006284 dimer interface [polypeptide binding]; other site 1005048006285 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1005048006286 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1005048006287 putative dimer interface [polypeptide binding]; other site 1005048006288 [2Fe-2S] cluster binding site [ion binding]; other site 1005048006289 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1005048006290 putative dimer interface [polypeptide binding]; other site 1005048006291 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1005048006292 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1005048006293 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1005048006294 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 1005048006295 catalytic loop [active] 1005048006296 iron binding site [ion binding]; other site 1005048006297 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 1005048006298 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 1005048006299 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1005048006300 [4Fe-4S] binding site [ion binding]; other site 1005048006301 molybdopterin cofactor binding site; other site 1005048006302 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1005048006303 molybdopterin cofactor binding site; other site 1005048006304 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1005048006305 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1005048006306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048006307 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048006308 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 1005048006309 putative dimerization interface [polypeptide binding]; other site 1005048006310 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1005048006311 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 1005048006312 putative substrate translocation pore; other site 1005048006313 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1005048006314 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 1005048006315 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048006316 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1005048006317 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1005048006318 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1005048006319 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 1005048006320 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 1005048006321 putative substrate translocation pore; other site 1005048006322 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1005048006323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005048006324 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 1005048006325 ligand binding site [chemical binding]; other site 1005048006326 flexible hinge region; other site 1005048006327 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1005048006328 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005048006329 PYR/PP interface [polypeptide binding]; other site 1005048006330 dimer interface [polypeptide binding]; other site 1005048006331 TPP binding site [chemical binding]; other site 1005048006332 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005048006333 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1005048006334 TPP-binding site; other site 1005048006335 dimer interface [polypeptide binding]; other site 1005048006336 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1005048006337 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1005048006338 PAS domain S-box; Region: sensory_box; TIGR00229 1005048006339 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 1005048006340 putative active site [active] 1005048006341 heme pocket [chemical binding]; other site 1005048006342 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1005048006343 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1005048006344 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1005048006345 Helix-turn-helix domain; Region: HTH_18; pfam12833 1005048006346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048006347 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 1005048006348 lipoyl attachment site [posttranslational modification]; other site 1005048006349 glycine dehydrogenase; Provisional; Region: PRK05367 1005048006350 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1005048006351 tetramer interface [polypeptide binding]; other site 1005048006352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048006353 catalytic residue [active] 1005048006354 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1005048006355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048006356 tetramer interface [polypeptide binding]; other site 1005048006357 catalytic residue [active] 1005048006358 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1005048006359 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1005048006360 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 1005048006361 substrate binding pocket [chemical binding]; other site 1005048006362 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1005048006363 membrane-bound complex binding site; other site 1005048006364 hinge residues; other site 1005048006365 serine O-acetyltransferase; Region: cysE; TIGR01172 1005048006366 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 1005048006367 trimer interface [polypeptide binding]; other site 1005048006368 active site 1005048006369 substrate binding site [chemical binding]; other site 1005048006370 CoA binding site [chemical binding]; other site 1005048006371 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1005048006372 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 1005048006373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048006374 catalytic residue [active] 1005048006375 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 1005048006376 Cna protein B-type domain; Region: Cna_B_2; pfam13715 1005048006377 tail sheath protein; Provisional; Region: 18; PHA02539 1005048006378 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1005048006379 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 1005048006380 Phage protein D [General function prediction only]; Region: COG3500 1005048006381 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1005048006382 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048006383 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1005048006384 PAAR motif; Region: PAAR_motif; cl15808 1005048006385 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 1005048006386 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1005048006387 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1005048006388 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 1005048006389 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1005048006390 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 1005048006391 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 1005048006392 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1005048006393 Walker A motif; other site 1005048006394 ATP binding site [chemical binding]; other site 1005048006395 Walker B motif; other site 1005048006396 arginine finger; other site 1005048006397 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1005048006398 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1005048006399 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1005048006400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048006401 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 1005048006402 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 1005048006403 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048006404 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048006405 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048006406 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 1005048006407 S-adenosylmethionine binding site [chemical binding]; other site 1005048006408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048006409 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1005048006410 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048006411 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048006412 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048006413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048006414 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1005048006415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048006416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048006417 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1005048006418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048006419 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1005048006420 Coenzyme A binding pocket [chemical binding]; other site 1005048006421 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 1005048006422 active site residue [active] 1005048006423 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 1005048006424 active site residue [active] 1005048006425 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 1005048006426 active site residue [active] 1005048006427 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 1005048006428 active site residue [active] 1005048006429 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1005048006430 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 1005048006431 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1005048006432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048006433 catalytic residue [active] 1005048006434 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048006435 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 1005048006436 putative DNA binding site [nucleotide binding]; other site 1005048006437 putative Zn2+ binding site [ion binding]; other site 1005048006438 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048006439 DEK C terminal domain; Region: DEK_C; pfam08766 1005048006440 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1005048006441 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006442 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006443 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006444 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006445 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 1005048006446 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006447 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006448 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006449 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1005048006450 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1005048006451 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1005048006452 TAP-like protein; Region: Abhydrolase_4; pfam08386 1005048006453 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1005048006454 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1005048006455 tetramer interface [polypeptide binding]; other site 1005048006456 active site 1005048006457 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1005048006458 active site 1005048006459 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1005048006460 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1005048006461 active site 1005048006462 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1005048006463 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005048006464 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005048006465 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 1005048006466 non-specific DNA binding site [nucleotide binding]; other site 1005048006467 salt bridge; other site 1005048006468 sequence-specific DNA binding site [nucleotide binding]; other site 1005048006469 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1005048006470 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005048006471 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005048006472 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1005048006473 dimer interface [polypeptide binding]; other site 1005048006474 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1005048006475 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1005048006476 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1005048006477 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1005048006478 NAD(P) binding site [chemical binding]; other site 1005048006479 shikimate binding site; other site 1005048006480 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1005048006481 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048006482 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 1005048006483 trimer interface [polypeptide binding]; other site 1005048006484 eyelet of channel; other site 1005048006485 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 1005048006486 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048006487 putative substrate translocation pore; other site 1005048006488 shikimate transporter; Provisional; Region: PRK09952 1005048006489 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 1005048006490 putative substrate translocation pore; other site 1005048006491 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1005048006492 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 1005048006493 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1005048006494 classical (c) SDRs; Region: SDR_c; cd05233 1005048006495 NAD(P) binding site [chemical binding]; other site 1005048006496 active site 1005048006497 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048006498 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048006499 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1005048006500 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1005048006501 active site 1005048006502 catalytic site [active] 1005048006503 Bacterial protein of unknown function (DUF899); Region: DUF899; cl17828 1005048006504 CAAX protease self-immunity; Region: Abi; pfam02517 1005048006505 Cupin domain; Region: Cupin_2; cl17218 1005048006506 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048006507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048006508 short chain dehydrogenase; Provisional; Region: PRK06138 1005048006509 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1005048006510 NAD binding site [chemical binding]; other site 1005048006511 homotetramer interface [polypeptide binding]; other site 1005048006512 homodimer interface [polypeptide binding]; other site 1005048006513 active site 1005048006514 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 1005048006515 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048006516 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1005048006517 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1005048006518 putative active site pocket [active] 1005048006519 metal binding site [ion binding]; metal-binding site 1005048006520 short chain dehydrogenase; Provisional; Region: PRK08628 1005048006521 classical (c) SDRs; Region: SDR_c; cd05233 1005048006522 NAD(P) binding site [chemical binding]; other site 1005048006523 active site 1005048006524 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048006525 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048006526 Walker A/P-loop; other site 1005048006527 ATP binding site [chemical binding]; other site 1005048006528 Q-loop/lid; other site 1005048006529 ABC transporter signature motif; other site 1005048006530 Walker B; other site 1005048006531 D-loop; other site 1005048006532 H-loop/switch region; other site 1005048006533 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048006534 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048006535 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048006536 TM-ABC transporter signature motif; other site 1005048006537 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 1005048006538 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1005048006539 putative ligand binding site [chemical binding]; other site 1005048006540 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1005048006541 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1005048006542 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1005048006543 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1005048006544 DEAD_2; Region: DEAD_2; pfam06733 1005048006545 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1005048006546 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1005048006547 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 1005048006548 catalytic loop [active] 1005048006549 iron binding site [ion binding]; other site 1005048006550 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1005048006551 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1005048006552 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1005048006553 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1005048006554 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1005048006555 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048006556 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005048006557 PLD-like domain; Region: PLDc_2; pfam13091 1005048006558 putative active site [active] 1005048006559 catalytic site [active] 1005048006560 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 1005048006561 putative active site [active] 1005048006562 catalytic site [active] 1005048006563 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048006564 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 1005048006565 trimer interface [polypeptide binding]; other site 1005048006566 eyelet of channel; other site 1005048006567 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1005048006568 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 1005048006569 putative PBP binding loops; other site 1005048006570 ABC-ATPase subunit interface; other site 1005048006571 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1005048006572 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048006573 Walker A/P-loop; other site 1005048006574 ATP binding site [chemical binding]; other site 1005048006575 Q-loop/lid; other site 1005048006576 ABC transporter signature motif; other site 1005048006577 Walker B; other site 1005048006578 D-loop; other site 1005048006579 H-loop/switch region; other site 1005048006580 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 1005048006581 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 1005048006582 ABC-ATPase subunit interface; other site 1005048006583 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1005048006584 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 1005048006585 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1005048006586 putative di-iron ligands [ion binding]; other site 1005048006587 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1005048006588 Predicted transporter component [General function prediction only]; Region: COG2391 1005048006589 Sulphur transport; Region: Sulf_transp; pfam04143 1005048006590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048006591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048006592 dimerization interface [polypeptide binding]; other site 1005048006593 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1005048006594 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1005048006595 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048006596 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 1005048006597 putative C-terminal domain interface [polypeptide binding]; other site 1005048006598 putative GSH binding site (G-site) [chemical binding]; other site 1005048006599 putative dimer interface [polypeptide binding]; other site 1005048006600 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1005048006601 dimer interface [polypeptide binding]; other site 1005048006602 N-terminal domain interface [polypeptide binding]; other site 1005048006603 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048006604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048006605 NmrA-like family; Region: NmrA; pfam05368 1005048006606 NAD(P) binding site [chemical binding]; other site 1005048006607 active site 1005048006608 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048006609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048006610 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1005048006611 putative effector binding pocket; other site 1005048006612 putative dimerization interface [polypeptide binding]; other site 1005048006613 Phage major coat protein, Gp8; Region: Phage_Coat_Gp8; cl15426 1005048006614 Zonular occludens toxin (Zot); Region: Zot; cl17485 1005048006615 malate:quinone oxidoreductase; Validated; Region: PRK05257 1005048006616 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1005048006617 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048006618 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 1005048006619 N-terminal plug; other site 1005048006620 ligand-binding site [chemical binding]; other site 1005048006621 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048006622 trimer interface [polypeptide binding]; other site 1005048006623 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048006624 trimer interface [polypeptide binding]; other site 1005048006625 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048006626 trimer interface [polypeptide binding]; other site 1005048006627 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048006628 trimer interface [polypeptide binding]; other site 1005048006629 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048006630 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1005048006631 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1005048006632 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048006633 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 1005048006634 non-specific DNA binding site [nucleotide binding]; other site 1005048006635 salt bridge; other site 1005048006636 sequence-specific DNA binding site [nucleotide binding]; other site 1005048006637 Helix-turn-helix domain; Region: HTH_18; pfam12833 1005048006638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048006639 hypothetical protein; Provisional; Region: PRK06834 1005048006640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048006641 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048006642 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 1005048006643 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1005048006644 putative active site [active] 1005048006645 metal binding site [ion binding]; metal-binding site 1005048006646 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 1005048006647 homotrimer interaction site [polypeptide binding]; other site 1005048006648 putative active site [active] 1005048006649 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1005048006650 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048006651 Predicted transcriptional regulator [Transcription]; Region: COG1959 1005048006652 Transcriptional regulator; Region: Rrf2; pfam02082 1005048006653 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048006654 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048006655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1005048006656 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048006657 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048006658 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048006659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048006660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048006661 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1005048006662 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1005048006663 active site 1005048006664 catalytic site [active] 1005048006665 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1005048006666 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1005048006667 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1005048006668 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1005048006669 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1005048006670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048006671 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 1005048006672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048006673 DNA-binding site [nucleotide binding]; DNA binding site 1005048006674 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 1005048006675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048006676 homodimer interface [polypeptide binding]; other site 1005048006677 catalytic residue [active] 1005048006678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 1005048006679 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 1005048006680 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1005048006681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048006682 catalytic residue [active] 1005048006683 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1005048006684 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048006685 dimer interface [polypeptide binding]; other site 1005048006686 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048006687 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005048006688 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048006689 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048006690 putative ligand binding site [chemical binding]; other site 1005048006691 Cupin superfamily protein; Region: Cupin_4; pfam08007 1005048006692 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1005048006693 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1005048006694 Condensation domain; Region: Condensation; pfam00668 1005048006695 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006696 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048006697 acyl-activating enzyme (AAE) consensus motif; other site 1005048006698 AMP binding site [chemical binding]; other site 1005048006699 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006700 Condensation domain; Region: Condensation; pfam00668 1005048006701 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048006702 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048006703 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006704 acyl-activating enzyme (AAE) consensus motif; other site 1005048006705 AMP binding site [chemical binding]; other site 1005048006706 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006707 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1005048006708 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1005048006709 Condensation domain; Region: Condensation; pfam00668 1005048006710 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006711 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048006712 acyl-activating enzyme (AAE) consensus motif; other site 1005048006713 AMP binding site [chemical binding]; other site 1005048006714 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006715 Condensation domain; Region: Condensation; pfam00668 1005048006716 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006717 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048006718 acyl-activating enzyme (AAE) consensus motif; other site 1005048006719 AMP binding site [chemical binding]; other site 1005048006720 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006721 Condensation domain; Region: Condensation; pfam00668 1005048006722 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048006723 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006724 acyl-activating enzyme (AAE) consensus motif; other site 1005048006725 AMP binding site [chemical binding]; other site 1005048006726 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006727 Condensation domain; Region: Condensation; pfam00668 1005048006728 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006729 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048006730 acyl-activating enzyme (AAE) consensus motif; other site 1005048006731 AMP binding site [chemical binding]; other site 1005048006732 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006733 Condensation domain; Region: Condensation; pfam00668 1005048006734 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048006735 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048006736 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006737 acyl-activating enzyme (AAE) consensus motif; other site 1005048006738 AMP binding site [chemical binding]; other site 1005048006739 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006740 Condensation domain; Region: Condensation; pfam00668 1005048006741 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048006742 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048006743 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048006744 acyl-activating enzyme (AAE) consensus motif; other site 1005048006745 AMP binding site [chemical binding]; other site 1005048006746 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048006747 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048006748 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 1005048006749 putative substrate translocation pore; other site 1005048006750 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048006751 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048006752 TM-ABC transporter signature motif; other site 1005048006753 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048006754 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048006755 Walker A/P-loop; other site 1005048006756 ATP binding site [chemical binding]; other site 1005048006757 Q-loop/lid; other site 1005048006758 ABC transporter signature motif; other site 1005048006759 Walker B; other site 1005048006760 D-loop; other site 1005048006761 H-loop/switch region; other site 1005048006762 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048006763 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1005048006764 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1005048006765 ligand binding site [chemical binding]; other site 1005048006766 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048006767 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048006768 TM-ABC transporter signature motif; other site 1005048006769 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1005048006770 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048006771 substrate binding site [chemical binding]; other site 1005048006772 dimer interface [polypeptide binding]; other site 1005048006773 ATP binding site [chemical binding]; other site 1005048006774 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1005048006775 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 1005048006776 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1005048006777 NAD(P) binding site [chemical binding]; other site 1005048006778 catalytic residues [active] 1005048006779 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1005048006780 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1005048006781 NAD(P) binding site [chemical binding]; other site 1005048006782 catalytic residues [active] 1005048006783 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1005048006784 intersubunit interface [polypeptide binding]; other site 1005048006785 active site 1005048006786 catalytic residue [active] 1005048006787 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005048006788 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1005048006789 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005048006790 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1005048006791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048006792 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 1005048006793 phosphorylation site [posttranslational modification] 1005048006794 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 1005048006795 ATP binding site [chemical binding]; other site 1005048006796 G-X-G motif; other site 1005048006797 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 1005048006798 active site 1005048006799 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1005048006800 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 1005048006801 active site 1005048006802 phosphorylation site [posttranslational modification] 1005048006803 intermolecular recognition site; other site 1005048006804 dimerization interface [polypeptide binding]; other site 1005048006805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048006806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048006807 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1005048006808 dimer interface [polypeptide binding]; other site 1005048006809 phosphorylation site [posttranslational modification] 1005048006810 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 1005048006811 ATP binding site [chemical binding]; other site 1005048006812 Mg2+ binding site [ion binding]; other site 1005048006813 G-X-G motif; other site 1005048006814 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 1005048006815 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1005048006816 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1005048006817 Subunit I/III interface [polypeptide binding]; other site 1005048006818 Subunit III/IV interface [polypeptide binding]; other site 1005048006819 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1005048006820 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1005048006821 D-pathway; other site 1005048006822 Putative ubiquinol binding site [chemical binding]; other site 1005048006823 Low-spin heme (heme b) binding site [chemical binding]; other site 1005048006824 Putative water exit pathway; other site 1005048006825 Binuclear center (heme o3/CuB) [ion binding]; other site 1005048006826 K-pathway; other site 1005048006827 Putative proton exit pathway; other site 1005048006828 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1005048006829 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1005048006830 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1005048006831 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048006832 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 1005048006833 putative substrate translocation pore; other site 1005048006834 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048006835 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048006836 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005048006837 trimer interface [polypeptide binding]; other site 1005048006838 Haemagglutinin; Region: HIM; pfam05662 1005048006839 YadA-like C-terminal region; Region: YadA; pfam03895 1005048006840 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1005048006841 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1005048006842 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1005048006843 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 1005048006844 S-adenosylmethionine binding site [chemical binding]; other site 1005048006845 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1005048006846 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1005048006847 active site 1005048006848 non-prolyl cis peptide bond; other site 1005048006849 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 1005048006850 short chain dehydrogenase; Provisional; Region: PRK12937 1005048006851 NADP binding site [chemical binding]; other site 1005048006852 homodimer interface [polypeptide binding]; other site 1005048006853 active site 1005048006854 substrate binding site [chemical binding]; other site 1005048006855 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1005048006856 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048006857 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1005048006858 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048006859 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; cd00060 1005048006860 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1005048006861 phosphopeptide binding site; other site 1005048006862 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1005048006863 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1005048006864 ATP binding site [chemical binding]; other site 1005048006865 Walker A motif; other site 1005048006866 hexamer interface [polypeptide binding]; other site 1005048006867 Walker B motif; other site 1005048006868 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1005048006869 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1005048006870 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005048006871 TadE-like protein; Region: TadE; pfam07811 1005048006872 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 1005048006873 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1005048006874 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1005048006875 DNA binding residues [nucleotide binding] 1005048006876 Cadherin repeat-like domain; Region: CA_like; cl15786 1005048006877 Ca2+ binding site [ion binding]; other site 1005048006878 Putative Ig domain; Region: He_PIG; pfam05345 1005048006879 Putative Ig domain; Region: He_PIG; pfam05345 1005048006880 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048006881 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1005048006882 Phage Tail Collar Domain; Region: Collar; pfam07484 1005048006883 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1005048006884 Phage Tail Collar Domain; Region: Collar; pfam07484 1005048006885 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 1005048006886 Phage Tail Collar Domain; Region: Collar; pfam07484 1005048006887 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1005048006888 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048006889 Coenzyme A binding pocket [chemical binding]; other site 1005048006890 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1005048006891 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1005048006892 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1005048006893 NAD(P) binding site [chemical binding]; other site 1005048006894 substrate binding site [chemical binding]; other site 1005048006895 dimer interface [polypeptide binding]; other site 1005048006896 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048006897 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1005048006898 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1005048006899 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005048006900 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1005048006901 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1005048006902 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005048006903 Walker A/P-loop; other site 1005048006904 ATP binding site [chemical binding]; other site 1005048006905 Q-loop/lid; other site 1005048006906 ABC transporter signature motif; other site 1005048006907 Walker B; other site 1005048006908 D-loop; other site 1005048006909 H-loop/switch region; other site 1005048006910 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048006911 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048006912 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048006913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048006914 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1005048006915 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1005048006916 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1005048006917 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1005048006918 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1005048006919 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005048006920 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1005048006921 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 1005048006922 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1005048006923 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1005048006924 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1005048006925 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 1005048006926 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048006927 putative substrate translocation pore; other site 1005048006928 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048006929 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1005048006930 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 1005048006931 active site 1005048006932 phosphorylation site [posttranslational modification] 1005048006933 intermolecular recognition site; other site 1005048006934 dimerization interface [polypeptide binding]; other site 1005048006935 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 1005048006936 Walker A motif; other site 1005048006937 ATP binding site [chemical binding]; other site 1005048006938 Walker B motif; other site 1005048006939 arginine finger; other site 1005048006940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048006941 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1005048006942 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 1005048006943 dimer interface [polypeptide binding]; other site 1005048006944 phosphorylation site [posttranslational modification] 1005048006945 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 1005048006946 ATP binding site [chemical binding]; other site 1005048006947 Mg2+ binding site [ion binding]; other site 1005048006948 G-X-G motif; other site 1005048006949 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1005048006950 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 1005048006951 putative substrate translocation pore; other site 1005048006952 SlyX; Region: SlyX; pfam04102 1005048006953 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1005048006954 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1005048006955 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1005048006956 active site 1005048006957 elongation factor G; Reviewed; Region: PRK00007 1005048006958 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1005048006959 G1 box; other site 1005048006960 putative GEF interaction site [polypeptide binding]; other site 1005048006961 GTP/Mg2+ binding site [chemical binding]; other site 1005048006962 Switch I region; other site 1005048006963 G2 box; other site 1005048006964 G3 box; other site 1005048006965 Switch II region; other site 1005048006966 G4 box; other site 1005048006967 G5 box; other site 1005048006968 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 1005048006969 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 1005048006970 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 1005048006971 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 1005048006972 dimerization interface [polypeptide binding]; other site 1005048006973 active site 1005048006974 potential frameshift: common BLAST hit: gi|187922052|ref|YP_001893694.1| RNA-directed DNA polymerase (Reverse transcriptase) 1005048006975 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 1005048006976 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1005048006977 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1005048006978 putative active site [active] 1005048006979 putative NTP binding site [chemical binding]; other site 1005048006980 putative nucleic acid binding site [nucleotide binding]; other site 1005048006981 Paraquat-inducible protein A; Region: PqiA; pfam04403 1005048006982 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1005048006983 Paraquat-inducible protein A; Region: PqiA; pfam04403 1005048006984 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1005048006985 mce related protein; Region: MCE; pfam02470 1005048006986 mce related protein; Region: MCE; pfam02470 1005048006987 mce related protein; Region: MCE; pfam02470 1005048006988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1005048006989 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1005048006990 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1005048006991 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 1005048006992 RNA binding surface [nucleotide binding]; other site 1005048006993 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1005048006994 active site 1005048006995 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1005048006996 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1005048006997 putative active site [active] 1005048006998 putative metal binding residues [ion binding]; other site 1005048006999 signature motif; other site 1005048007000 putative triphosphate binding site [ion binding]; other site 1005048007001 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1005048007002 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1005048007003 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005048007004 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005048007005 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1005048007006 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1005048007007 GAF domain; Region: GAF_2; pfam13185 1005048007008 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1005048007009 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 1005048007010 NAD(P) binding site [chemical binding]; other site 1005048007011 catalytic residues [active] 1005048007012 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 1005048007013 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 1005048007014 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1005048007015 MgtC family; Region: MgtC; pfam02308 1005048007016 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1005048007017 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 1005048007018 glutathione reductase; Validated; Region: PRK06116 1005048007019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048007020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048007021 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1005048007022 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1005048007023 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 1005048007024 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048007025 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048007026 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1005048007027 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1005048007028 putative active site [active] 1005048007029 catalytic site [active] 1005048007030 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 1005048007031 putative active site [active] 1005048007032 catalytic site [active] 1005048007033 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1005048007034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 1005048007035 Chitin binding domain; Region: Chitin_bind_3; cl03871 1005048007036 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 1005048007037 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1005048007038 active site 1005048007039 DNA binding site [nucleotide binding] 1005048007040 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 1005048007041 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 1005048007042 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048007043 putative substrate translocation pore; other site 1005048007044 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 1005048007045 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 1005048007046 dimerization interface [polypeptide binding]; other site 1005048007047 putative DNA binding site [nucleotide binding]; other site 1005048007048 putative Zn2+ binding site [ion binding]; other site 1005048007049 Predicted membrane protein [Function unknown]; Region: COG1297 1005048007050 putative oligopeptide transporter, OPT family; Region: TIGR00733 1005048007051 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1005048007052 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 1005048007053 catalytic loop [active] 1005048007054 iron binding site [ion binding]; other site 1005048007055 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1005048007056 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1005048007057 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048007058 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1005048007059 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048007060 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048007061 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1005048007062 catalytic site [active] 1005048007063 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1005048007064 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 1005048007065 N-terminal plug; other site 1005048007066 ligand-binding site [chemical binding]; other site 1005048007067 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1005048007068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048007069 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048007070 Condensation domain; Region: Condensation; pfam00668 1005048007071 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048007072 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048007073 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048007074 acyl-activating enzyme (AAE) consensus motif; other site 1005048007075 AMP binding site [chemical binding]; other site 1005048007076 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048007077 Condensation domain; Region: Condensation; pfam00668 1005048007078 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048007079 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048007080 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048007081 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048007082 acyl-activating enzyme (AAE) consensus motif; other site 1005048007083 AMP binding site [chemical binding]; other site 1005048007084 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048007085 Condensation domain; Region: Condensation; pfam00668 1005048007086 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1005048007087 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1005048007088 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048007089 acyl-activating enzyme (AAE) consensus motif; other site 1005048007090 AMP binding site [chemical binding]; other site 1005048007091 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1005048007092 Condensation domain; Region: Condensation; pfam00668 1005048007093 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1005048007094 Condensation domain; Region: Condensation; pfam00668 1005048007095 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1005048007096 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1005048007097 acyl-activating enzyme (AAE) consensus motif; other site 1005048007098 AMP binding site [chemical binding]; other site 1005048007099 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1005048007100 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1005048007101 Walker A/P-loop; other site 1005048007102 ATP binding site [chemical binding]; other site 1005048007103 Q-loop/lid; other site 1005048007104 ABC transporter signature motif; other site 1005048007105 Walker B; other site 1005048007106 D-loop; other site 1005048007107 H-loop/switch region; other site 1005048007108 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 1005048007109 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1005048007110 siderophore binding site; other site 1005048007111 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1005048007112 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1005048007113 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1005048007114 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1005048007115 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 1005048007116 ABC-ATPase subunit interface; other site 1005048007117 dimer interface [polypeptide binding]; other site 1005048007118 putative PBP binding regions; other site 1005048007119 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 1005048007120 ABC-ATPase subunit interface; other site 1005048007121 dimer interface [polypeptide binding]; other site 1005048007122 putative PBP binding regions; other site 1005048007123 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1005048007124 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1005048007125 Walker A/P-loop; other site 1005048007126 ATP binding site [chemical binding]; other site 1005048007127 Q-loop/lid; other site 1005048007128 ABC transporter signature motif; other site 1005048007129 Walker B; other site 1005048007130 D-loop; other site 1005048007131 H-loop/switch region; other site 1005048007132 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1005048007133 MbtH-like protein; Region: MbtH; cl01279 1005048007134 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1005048007135 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048007136 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 1005048007137 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1005048007138 Cache domain; Region: Cache_1; pfam02743 1005048007139 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 1005048007140 dimerization interface [polypeptide binding]; other site 1005048007141 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048007142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048007143 metal binding site [ion binding]; metal-binding site 1005048007144 active site 1005048007145 I-site; other site 1005048007146 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1005048007147 Clp amino terminal domain; Region: Clp_N; pfam02861 1005048007148 Clp amino terminal domain; Region: Clp_N; pfam02861 1005048007149 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 1005048007150 Walker A motif; other site 1005048007151 ATP binding site [chemical binding]; other site 1005048007152 Walker B motif; other site 1005048007153 arginine finger; other site 1005048007154 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 1005048007155 Walker A motif; other site 1005048007156 ATP binding site [chemical binding]; other site 1005048007157 Walker B motif; other site 1005048007158 arginine finger; other site 1005048007159 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1005048007160 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 1005048007161 MoaE homodimer interface [polypeptide binding]; other site 1005048007162 MoaD interaction [polypeptide binding]; other site 1005048007163 active site residues [active] 1005048007164 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1005048007165 MoaE interaction surface [polypeptide binding]; other site 1005048007166 MoeB interaction surface [polypeptide binding]; other site 1005048007167 thiocarboxylated glycine; other site 1005048007168 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1005048007169 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 1005048007170 dimer interface [polypeptide binding]; other site 1005048007171 putative functional site; other site 1005048007172 putative MPT binding site; other site 1005048007173 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1005048007174 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 1005048007175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048007176 catalytic residue [active] 1005048007177 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1005048007178 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1005048007179 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 1005048007180 catalytic site [active] 1005048007181 G-X2-G-X-G-K; other site 1005048007182 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1005048007183 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1005048007184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005048007185 Zn2+ binding site [ion binding]; other site 1005048007186 Mg2+ binding site [ion binding]; other site 1005048007187 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1005048007188 synthetase active site [active] 1005048007189 NTP binding site [chemical binding]; other site 1005048007190 metal binding site [ion binding]; metal-binding site 1005048007191 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 1005048007192 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1005048007193 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 1005048007194 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1005048007195 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 1005048007196 tetramer interface [polypeptide binding]; other site 1005048007197 active site 1005048007198 Mg2+/Mn2+ binding site [ion binding]; other site 1005048007199 H-NS histone family; Region: Histone_HNS; pfam00816 1005048007200 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1005048007201 catalytic triad [active] 1005048007202 putative active site [active] 1005048007203 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048007204 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1005048007205 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048007206 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1005048007207 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1005048007208 Isochorismatase family; Region: Isochorismatase; pfam00857 1005048007209 catalytic triad [active] 1005048007210 conserved cis-peptide bond; other site 1005048007211 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1005048007212 trimer interface [polypeptide binding]; other site 1005048007213 putative Zn binding site [ion binding]; other site 1005048007214 LysE type translocator; Region: LysE; cl00565 1005048007215 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1005048007216 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048007217 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048007218 TM-ABC transporter signature motif; other site 1005048007219 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048007220 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048007221 TM-ABC transporter signature motif; other site 1005048007222 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048007223 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048007224 Walker A/P-loop; other site 1005048007225 ATP binding site [chemical binding]; other site 1005048007226 Q-loop/lid; other site 1005048007227 ABC transporter signature motif; other site 1005048007228 Walker B; other site 1005048007229 D-loop; other site 1005048007230 H-loop/switch region; other site 1005048007231 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048007232 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048007233 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1005048007234 putative ligand binding site [chemical binding]; other site 1005048007235 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1005048007236 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1005048007237 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1005048007238 Predicted integral membrane protein [Function unknown]; Region: COG0392 1005048007239 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1005048007240 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1005048007241 aspartate kinase; Reviewed; Region: PRK06635 1005048007242 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 1005048007243 putative nucleotide binding site [chemical binding]; other site 1005048007244 putative catalytic residues [active] 1005048007245 putative Mg ion binding site [ion binding]; other site 1005048007246 putative aspartate binding site [chemical binding]; other site 1005048007247 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 1005048007248 putative allosteric regulatory site; other site 1005048007249 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 1005048007250 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1005048007251 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 1005048007252 Ligand Binding Site [chemical binding]; other site 1005048007253 TilS substrate binding domain; Region: TilS; pfam09179 1005048007254 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1005048007255 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1005048007256 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1005048007257 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005048007258 endonuclease III; Region: ENDO3c; smart00478 1005048007259 minor groove reading motif; other site 1005048007260 helix-hairpin-helix signature motif; other site 1005048007261 substrate binding pocket [chemical binding]; other site 1005048007262 active site 1005048007263 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1005048007264 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1005048007265 active site 1005048007266 HIGH motif; other site 1005048007267 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1005048007268 KMSKS motif; other site 1005048007269 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1005048007270 tRNA binding surface [nucleotide binding]; other site 1005048007271 anticodon binding site; other site 1005048007272 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 1005048007273 substrate binding site [chemical binding]; other site 1005048007274 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 1005048007275 substrate binding site [chemical binding]; other site 1005048007276 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1005048007277 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048007278 putative active site [active] 1005048007279 putative metal binding site [ion binding]; other site 1005048007280 hypothetical protein; Provisional; Region: PRK11239 1005048007281 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1005048007282 serine O-acetyltransferase; Region: cysE; TIGR01172 1005048007283 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 1005048007284 trimer interface [polypeptide binding]; other site 1005048007285 active site 1005048007286 substrate binding site [chemical binding]; other site 1005048007287 CoA binding site [chemical binding]; other site 1005048007288 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1005048007289 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1005048007290 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1005048007291 ribonuclease R; Region: RNase_R; TIGR02063 1005048007292 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1005048007293 RNB domain; Region: RNB; pfam00773 1005048007294 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 1005048007295 RNA binding site [nucleotide binding]; other site 1005048007296 MASE1; Region: MASE1; cl17823 1005048007297 Esterase/lipase [General function prediction only]; Region: COG1647 1005048007298 hypothetical protein; Provisional; Region: PRK10279 1005048007299 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1005048007300 active site 1005048007301 nucleophile elbow; other site 1005048007302 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1005048007303 Surface antigen; Region: Bac_surface_Ag; pfam01103 1005048007304 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1005048007305 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048007306 putative active site [active] 1005048007307 putative metal binding site [ion binding]; other site 1005048007308 hypothetical protein; Provisional; Region: PRK09256 1005048007309 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1005048007310 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1005048007311 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048007312 putative C-terminal domain interface [polypeptide binding]; other site 1005048007313 putative GSH binding site (G-site) [chemical binding]; other site 1005048007314 putative dimer interface [polypeptide binding]; other site 1005048007315 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1005048007316 putative N-terminal domain interface [polypeptide binding]; other site 1005048007317 putative dimer interface [polypeptide binding]; other site 1005048007318 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048007319 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1005048007320 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048007321 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 1005048007322 trimer interface [polypeptide binding]; other site 1005048007323 eyelet of channel; other site 1005048007324 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 1005048007325 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005048007326 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048007327 DNA-binding site [nucleotide binding]; DNA binding site 1005048007328 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005048007329 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005048007330 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1005048007331 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1005048007332 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1005048007333 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1005048007334 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 1005048007335 HSP70 interaction site [polypeptide binding]; other site 1005048007336 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1005048007337 substrate binding site [polypeptide binding]; other site 1005048007338 dimer interface [polypeptide binding]; other site 1005048007339 Predicted flavoprotein [General function prediction only]; Region: COG0431 1005048007340 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048007341 OsmC-like protein; Region: OsmC; pfam02566 1005048007342 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1005048007343 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 1005048007344 S-adenosylmethionine binding site [chemical binding]; other site 1005048007345 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 1005048007346 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1005048007347 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048007348 dimer interface [polypeptide binding]; other site 1005048007349 putative CheW interface [polypeptide binding]; other site 1005048007350 Cache domain; Region: Cache_2; pfam08269 1005048007351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048007352 dimer interface [polypeptide binding]; other site 1005048007353 putative CheW interface [polypeptide binding]; other site 1005048007354 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1005048007355 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 1005048007356 dimerization interface [polypeptide binding]; other site 1005048007357 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048007358 dimer interface [polypeptide binding]; other site 1005048007359 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1005048007360 putative CheW interface [polypeptide binding]; other site 1005048007361 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1005048007362 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1005048007363 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1005048007364 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 1005048007365 S-adenosylmethionine binding site [chemical binding]; other site 1005048007366 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 1005048007367 binding surface 1005048007368 TPR motif; other site 1005048007369 TPR repeat; Region: TPR_11; pfam13414 1005048007370 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 1005048007371 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 1005048007372 putative binding surface; other site 1005048007373 active site 1005048007374 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1005048007375 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 1005048007376 ATP binding site [chemical binding]; other site 1005048007377 Mg2+ binding site [ion binding]; other site 1005048007378 G-X-G motif; other site 1005048007379 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; cl00256 1005048007380 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1005048007381 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 1005048007382 active site 1005048007383 phosphorylation site [posttranslational modification] 1005048007384 intermolecular recognition site; other site 1005048007385 dimerization interface [polypeptide binding]; other site 1005048007386 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1005048007387 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 1005048007388 active site 1005048007389 phosphorylation site [posttranslational modification] 1005048007390 intermolecular recognition site; other site 1005048007391 CheB methylesterase; Region: CheB_methylest; pfam01339 1005048007392 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048007393 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 1005048007394 active site 1005048007395 phosphorylation site [posttranslational modification] 1005048007396 intermolecular recognition site; other site 1005048007397 dimerization interface [polypeptide binding]; other site 1005048007398 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048007399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048007400 metal binding site [ion binding]; metal-binding site 1005048007401 active site 1005048007402 I-site; other site 1005048007403 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1005048007404 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1005048007405 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1005048007406 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1005048007407 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 1005048007408 N-terminal plug; other site 1005048007409 ligand-binding site [chemical binding]; other site 1005048007410 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1005048007411 Double zinc ribbon; Region: DZR; pfam12773 1005048007412 CHRD domain; Region: CHRD; pfam07452 1005048007413 Patatin-like phospholipase; Region: Patatin; pfam01734 1005048007414 active site 1005048007415 nucleophile elbow; other site 1005048007416 Chorismate mutase type II; Region: CM_2; cl00693 1005048007417 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1005048007418 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1005048007419 PLD-like domain; Region: PLDc_2; pfam13091 1005048007420 putative active site [active] 1005048007421 catalytic site [active] 1005048007422 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1005048007423 PLD-like domain; Region: PLDc_2; pfam13091 1005048007424 putative active site [active] 1005048007425 catalytic site [active] 1005048007426 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1005048007427 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1005048007428 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_E; cd01313 1005048007429 active site 1005048007430 imidazolonepropionase; Validated; Region: PRK09356 1005048007431 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 1005048007432 active site 1005048007433 HutD; Region: HutD; pfam05962 1005048007434 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1005048007435 active sites [active] 1005048007436 tetramer interface [polypeptide binding]; other site 1005048007437 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048007438 urocanate hydratase; Provisional; Region: PRK05414 1005048007439 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1005048007440 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048007441 DNA-binding site [nucleotide binding]; DNA binding site 1005048007442 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1005048007443 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 1005048007444 putative substrate translocation pore; other site 1005048007445 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1005048007446 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 1005048007447 FAD binding pocket [chemical binding]; other site 1005048007448 FAD binding motif [chemical binding]; other site 1005048007449 phosphate binding motif [ion binding]; other site 1005048007450 beta-alpha-beta structure motif; other site 1005048007451 NAD binding pocket [chemical binding]; other site 1005048007452 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048007453 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048007454 Walker A/P-loop; other site 1005048007455 ATP binding site [chemical binding]; other site 1005048007456 Q-loop/lid; other site 1005048007457 ABC transporter signature motif; other site 1005048007458 Walker B; other site 1005048007459 D-loop; other site 1005048007460 H-loop/switch region; other site 1005048007461 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048007462 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048007463 Walker A/P-loop; other site 1005048007464 ATP binding site [chemical binding]; other site 1005048007465 Q-loop/lid; other site 1005048007466 ABC transporter signature motif; other site 1005048007467 Walker B; other site 1005048007468 D-loop; other site 1005048007469 H-loop/switch region; other site 1005048007470 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048007471 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 1005048007472 TM-ABC transporter signature motif; other site 1005048007473 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 1005048007474 TM-ABC transporter signature motif; other site 1005048007475 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1005048007476 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1005048007477 hypothetical protein; Validated; Region: PRK00029 1005048007478 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1005048007479 SelR domain; Region: SelR; pfam01641 1005048007480 intracellular septation protein A; Reviewed; Region: PRK00259 1005048007481 BolA-like protein; Region: BolA; pfam01722 1005048007482 SurA N-terminal domain; Region: SurA_N_3; cl07813 1005048007483 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1005048007484 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1005048007485 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 1005048007486 dimerization interface [polypeptide binding]; other site 1005048007487 ATP binding site [chemical binding]; other site 1005048007488 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 1005048007489 dimerization interface [polypeptide binding]; other site 1005048007490 ATP binding site [chemical binding]; other site 1005048007491 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1005048007492 putative active site [active] 1005048007493 catalytic triad [active] 1005048007494 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1005048007495 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1005048007496 putative NAD(P) binding site [chemical binding]; other site 1005048007497 dimer interface [polypeptide binding]; other site 1005048007498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048007499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048007500 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 1005048007501 putative effector binding pocket; other site 1005048007502 dimerization interface [polypeptide binding]; other site 1005048007503 LysR family transcriptional regulator; Provisional; Region: PRK14997 1005048007504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048007505 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1005048007506 putative effector binding pocket; other site 1005048007507 putative dimerization interface [polypeptide binding]; other site 1005048007508 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 1005048007509 putative NAD(P) binding site [chemical binding]; other site 1005048007510 homodimer interface [polypeptide binding]; other site 1005048007511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1005048007512 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1005048007513 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1005048007514 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1005048007515 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 1005048007516 putative ATP binding site [chemical binding]; other site 1005048007517 putative substrate binding site [chemical binding]; other site 1005048007518 NnrU protein; Region: NnrU; cl17713 1005048007519 Peptidase S46; Region: Peptidase_S46; pfam10459 1005048007520 Peptidase S7, Flavivirus NS3 serine protease; Region: Peptidase_S7; pfam00949 1005048007521 Spore Coat Protein U domain; Region: SCPU; pfam05229 1005048007522 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1005048007523 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005048007524 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005048007525 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005048007526 Spore Coat Protein U domain; Region: SCPU; pfam05229 1005048007527 malate synthase A; Region: malate_syn_A; TIGR01344 1005048007528 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1005048007529 active site 1005048007530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048007531 transcriptional activator TtdR; Provisional; Region: PRK09801 1005048007532 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 1005048007533 putative effector binding pocket; other site 1005048007534 dimerization interface [polypeptide binding]; other site 1005048007535 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1005048007536 S-formylglutathione hydrolase; Region: PLN02442 1005048007537 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1005048007538 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1005048007539 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1005048007540 substrate binding site [chemical binding]; other site 1005048007541 catalytic Zn binding site [ion binding]; other site 1005048007542 NAD binding site [chemical binding]; other site 1005048007543 structural Zn binding site [ion binding]; other site 1005048007544 dimer interface [polypeptide binding]; other site 1005048007545 DNA repair protein RadA; Provisional; Region: PRK11823 1005048007546 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 1005048007547 Walker A motif/ATP binding site; other site 1005048007548 ATP binding site [chemical binding]; other site 1005048007549 Walker B motif; other site 1005048007550 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1005048007551 alanine racemase; Reviewed; Region: dadX; PRK03646 1005048007552 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1005048007553 active site 1005048007554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048007555 substrate binding site [chemical binding]; other site 1005048007556 catalytic residues [active] 1005048007557 dimer interface [polypeptide binding]; other site 1005048007558 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1005048007559 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1005048007560 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1005048007561 Fe-S cluster binding site [ion binding]; other site 1005048007562 active site 1005048007563 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1005048007564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048007565 Coenzyme A binding pocket [chemical binding]; other site 1005048007566 Glycoprotease family; Region: Peptidase_M22; pfam00814 1005048007567 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1005048007568 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 1005048007569 catalytic residues [active] 1005048007570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048007571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048007572 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 1005048007573 putative effector binding pocket; other site 1005048007574 dimerization interface [polypeptide binding]; other site 1005048007575 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1005048007576 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005048007577 Walker A/P-loop; other site 1005048007578 ATP binding site [chemical binding]; other site 1005048007579 Q-loop/lid; other site 1005048007580 ABC transporter signature motif; other site 1005048007581 Walker B; other site 1005048007582 D-loop; other site 1005048007583 H-loop/switch region; other site 1005048007584 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 1005048007585 active site 1005048007586 catalytic triad [active] 1005048007587 oxyanion hole [active] 1005048007588 switch loop; other site 1005048007589 Carbonic anhydrase alpha (vertebrate-like) group. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA; cl00012 1005048007590 SurA N-terminal domain; Region: SurA_N_3; cl07813 1005048007591 periplasmic folding chaperone; Provisional; Region: PRK10788 1005048007592 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1005048007593 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 1005048007594 IHF dimer interface [polypeptide binding]; other site 1005048007595 IHF - DNA interface [nucleotide binding]; other site 1005048007596 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1005048007597 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1005048007598 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 1005048007599 Walker A motif; other site 1005048007600 ATP binding site [chemical binding]; other site 1005048007601 Walker B motif; other site 1005048007602 arginine finger; other site 1005048007603 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1005048007604 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1005048007605 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1005048007606 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 1005048007607 Walker A motif; other site 1005048007608 ATP binding site [chemical binding]; other site 1005048007609 Walker B motif; other site 1005048007610 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005048007611 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1005048007612 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1005048007613 oligomer interface [polypeptide binding]; other site 1005048007614 active site residues [active] 1005048007615 trigger factor; Provisional; Region: tig; PRK01490 1005048007616 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005048007617 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1005048007618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1005048007619 CreA protein; Region: CreA; pfam05981 1005048007620 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1005048007621 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048007622 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048007623 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1005048007624 catalytic residues [active] 1005048007625 substrate binding pocket [chemical binding]; other site 1005048007626 substrate-Mg2+ binding site; other site 1005048007627 aspartate-rich region 1; other site 1005048007628 aspartate-rich region 2; other site 1005048007629 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1005048007630 active site lid residues [active] 1005048007631 substrate binding pocket [chemical binding]; other site 1005048007632 catalytic residues [active] 1005048007633 substrate-Mg2+ binding site; other site 1005048007634 aspartate-rich region 1; other site 1005048007635 aspartate-rich region 2; other site 1005048007636 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048007637 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1005048007638 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1005048007639 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 1005048007640 phosphate binding site [ion binding]; other site 1005048007641 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1005048007642 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 1005048007643 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1005048007644 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1005048007645 active site 1005048007646 ribonuclease PH; Reviewed; Region: rph; PRK00173 1005048007647 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1005048007648 hexamer interface [polypeptide binding]; other site 1005048007649 active site 1005048007650 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 1005048007651 active site 1005048007652 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1005048007653 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1005048007654 active site 1005048007655 ATP binding site [chemical binding]; other site 1005048007656 substrate binding site [chemical binding]; other site 1005048007657 activation loop (A-loop); other site 1005048007658 hypothetical protein; Provisional; Region: PRK11820 1005048007659 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1005048007660 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1005048007661 outer membrane porin, OprD family; Region: OprD; pfam03573 1005048007662 homoserine dehydrogenase; Provisional; Region: PRK06349 1005048007663 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1005048007664 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1005048007665 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 1005048007666 aminotransferase AlaT; Validated; Region: PRK09265 1005048007667 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 1005048007668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048007669 homodimer interface [polypeptide binding]; other site 1005048007670 catalytic residue [active] 1005048007671 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 1005048007672 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1005048007673 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1005048007674 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1005048007675 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1005048007676 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 1005048007677 inhibitor-cofactor binding pocket; inhibition site 1005048007678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048007679 catalytic residue [active] 1005048007680 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1005048007681 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1005048007682 Ligand binding site; other site 1005048007683 Putative Catalytic site; other site 1005048007684 DXD motif; other site 1005048007685 putative formyltransferase; Provisional; Region: PRK06988 1005048007686 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1005048007687 active site 1005048007688 substrate binding site [chemical binding]; other site 1005048007689 cosubstrate binding site; other site 1005048007690 catalytic site [active] 1005048007691 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1005048007692 active site 1005048007693 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 1005048007694 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1005048007695 NAD binding site [chemical binding]; other site 1005048007696 substrate binding site [chemical binding]; other site 1005048007697 active site 1005048007698 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1005048007699 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1005048007700 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1005048007701 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 1005048007702 catalytic triad [active] 1005048007703 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1005048007704 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1005048007705 putative active site [active] 1005048007706 PhoH-like protein; Region: PhoH; pfam02562 1005048007707 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 1005048007708 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048007709 active site 1005048007710 metal binding site [ion binding]; metal-binding site 1005048007711 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048007712 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 1005048007713 dimer interface [polypeptide binding]; other site 1005048007714 conserved gate region; other site 1005048007715 putative PBP binding loops; other site 1005048007716 ABC-ATPase subunit interface; other site 1005048007717 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048007718 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048007719 Walker A/P-loop; other site 1005048007720 ATP binding site [chemical binding]; other site 1005048007721 Q-loop/lid; other site 1005048007722 ABC transporter signature motif; other site 1005048007723 Walker B; other site 1005048007724 D-loop; other site 1005048007725 H-loop/switch region; other site 1005048007726 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1005048007727 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005048007728 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1005048007729 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 1005048007730 active site 1005048007731 phosphorylation site [posttranslational modification] 1005048007732 intermolecular recognition site; other site 1005048007733 dimerization interface [polypeptide binding]; other site 1005048007734 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 1005048007735 DNA binding site [nucleotide binding] 1005048007736 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1005048007737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048007738 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 1005048007739 dimer interface [polypeptide binding]; other site 1005048007740 phosphorylation site [posttranslational modification] 1005048007741 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 1005048007742 ATP binding site [chemical binding]; other site 1005048007743 Mg2+ binding site [ion binding]; other site 1005048007744 G-X-G motif; other site 1005048007745 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005048007746 MarR family; Region: MarR_2; pfam12802 1005048007747 MarR family; Region: MarR_2; cl17246 1005048007748 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048007749 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1005048007750 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048007751 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1005048007752 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 1005048007753 putative substrate translocation pore; other site 1005048007754 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 1005048007755 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048007756 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1005048007757 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1005048007758 replicative DNA helicase; Provisional; Region: PRK07004 1005048007759 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1005048007760 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 1005048007761 Walker A motif; other site 1005048007762 ATP binding site [chemical binding]; other site 1005048007763 Walker B motif; other site 1005048007764 DNA binding loops [nucleotide binding] 1005048007765 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1005048007766 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1005048007767 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1005048007768 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1005048007769 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1005048007770 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1005048007771 LexA repressor; Validated; Region: PRK00215 1005048007772 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1005048007773 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 1005048007774 Catalytic site [active] 1005048007775 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1005048007776 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1005048007777 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1005048007778 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 1005048007779 active site 1005048007780 dimerization interface [polypeptide binding]; other site 1005048007781 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_8; cd07246 1005048007782 putative dimer interface [polypeptide binding]; other site 1005048007783 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048007784 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 1005048007785 ATP binding site [chemical binding]; other site 1005048007786 putative Mg++ binding site [ion binding]; other site 1005048007787 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 1005048007788 nucleotide binding region [chemical binding]; other site 1005048007789 ATP-binding site [chemical binding]; other site 1005048007790 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1005048007791 PAS domain; Region: PAS; smart00091 1005048007792 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 1005048007793 dimer interface [polypeptide binding]; other site 1005048007794 phosphorylation site [posttranslational modification] 1005048007795 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 1005048007796 ATP binding site [chemical binding]; other site 1005048007797 Mg2+ binding site [ion binding]; other site 1005048007798 G-X-G motif; other site 1005048007799 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1005048007800 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 1005048007801 active site 1005048007802 phosphorylation site [posttranslational modification] 1005048007803 intermolecular recognition site; other site 1005048007804 dimerization interface [polypeptide binding]; other site 1005048007805 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 1005048007806 DNA binding site [nucleotide binding] 1005048007807 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1005048007808 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 1005048007809 active site 1005048007810 substrate binding site [chemical binding]; other site 1005048007811 metal binding site [ion binding]; metal-binding site 1005048007812 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 1005048007813 dihydropteroate synthase; Region: DHPS; TIGR01496 1005048007814 substrate binding pocket [chemical binding]; other site 1005048007815 dimer interface [polypeptide binding]; other site 1005048007816 inhibitor binding site; inhibition site 1005048007817 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1005048007818 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 1005048007819 Walker A motif; other site 1005048007820 ATP binding site [chemical binding]; other site 1005048007821 Walker B motif; other site 1005048007822 arginine finger; other site 1005048007823 Peptidase family M41; Region: Peptidase_M41; pfam01434 1005048007824 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1005048007825 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1005048007826 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1005048007827 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1005048007828 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1005048007829 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1005048007830 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1005048007831 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1005048007832 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005048007833 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1005048007834 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1005048007835 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005048007836 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005048007837 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 1005048007838 IMP binding site; other site 1005048007839 dimer interface [polypeptide binding]; other site 1005048007840 interdomain contacts; other site 1005048007841 partial ornithine binding site; other site 1005048007842 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1005048007843 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1005048007844 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1005048007845 catalytic site [active] 1005048007846 subunit interface [polypeptide binding]; other site 1005048007847 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1005048007848 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1005048007849 NlpC/P60 family; Region: NLPC_P60; pfam00877 1005048007850 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1005048007851 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1005048007852 nucleophile elbow; other site 1005048007853 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1005048007854 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1005048007855 PAS domain; Region: PAS_8; pfam13188 1005048007856 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 1005048007857 dimer interface [polypeptide binding]; other site 1005048007858 phosphorylation site [posttranslational modification] 1005048007859 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 1005048007860 ATP binding site [chemical binding]; other site 1005048007861 Mg2+ binding site [ion binding]; other site 1005048007862 G-X-G motif; other site 1005048007863 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1005048007864 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 1005048007865 active site 1005048007866 phosphorylation site [posttranslational modification] 1005048007867 intermolecular recognition site; other site 1005048007868 dimerization interface [polypeptide binding]; other site 1005048007869 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 1005048007870 DNA binding site [nucleotide binding] 1005048007871 transcriptional regulator PhoU; Provisional; Region: PRK11115 1005048007872 PhoU domain; Region: PhoU; pfam01895 1005048007873 PhoU domain; Region: PhoU; pfam01895 1005048007874 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1005048007875 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1005048007876 Walker A/P-loop; other site 1005048007877 ATP binding site [chemical binding]; other site 1005048007878 Q-loop/lid; other site 1005048007879 ABC transporter signature motif; other site 1005048007880 Walker B; other site 1005048007881 D-loop; other site 1005048007882 H-loop/switch region; other site 1005048007883 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1005048007884 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 1005048007885 dimer interface [polypeptide binding]; other site 1005048007886 conserved gate region; other site 1005048007887 putative PBP binding loops; other site 1005048007888 ABC-ATPase subunit interface; other site 1005048007889 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1005048007890 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 1005048007891 dimer interface [polypeptide binding]; other site 1005048007892 conserved gate region; other site 1005048007893 putative PBP binding loops; other site 1005048007894 ABC-ATPase subunit interface; other site 1005048007895 PBP superfamily domain; Region: PBP_like_2; cl17296 1005048007896 polyphosphate kinase; Provisional; Region: PRK05443 1005048007897 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1005048007898 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1005048007899 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1005048007900 putative domain interface [polypeptide binding]; other site 1005048007901 putative active site [active] 1005048007902 catalytic site [active] 1005048007903 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1005048007904 putative domain interface [polypeptide binding]; other site 1005048007905 putative active site [active] 1005048007906 catalytic site [active] 1005048007907 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1005048007908 catalytic core [active] 1005048007909 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1005048007910 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1005048007911 ferredoxin; Provisional; Region: PRK08764 1005048007912 Putative Fe-S cluster; Region: FeS; pfam04060 1005048007913 4Fe-4S binding domain; Region: Fer4; pfam00037 1005048007914 endonuclease III; Provisional; Region: PRK10702 1005048007915 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005048007916 minor groove reading motif; other site 1005048007917 helix-hairpin-helix signature motif; other site 1005048007918 substrate binding pocket [chemical binding]; other site 1005048007919 active site 1005048007920 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1005048007921 CCC1; Region: CCC1; cd02435 1005048007922 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1005048007923 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1005048007924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048007925 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1005048007926 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048007927 Outer membrane efflux protein; Region: OEP; pfam02321 1005048007928 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1005048007929 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1005048007930 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 1005048007931 active site 1005048007932 phosphorylation site [posttranslational modification] 1005048007933 intermolecular recognition site; other site 1005048007934 dimerization interface [polypeptide binding]; other site 1005048007935 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 1005048007936 DNA binding site [nucleotide binding] 1005048007937 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 1005048007938 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 1005048007939 dimer interface [polypeptide binding]; other site 1005048007940 phosphorylation site [posttranslational modification] 1005048007941 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 1005048007942 ATP binding site [chemical binding]; other site 1005048007943 Mg2+ binding site [ion binding]; other site 1005048007944 G-X-G motif; other site 1005048007945 Cytochrome c; Region: Cytochrom_C; cl11414 1005048007946 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1005048007947 Site-specific recombinase; Region: SpecificRecomb; pfam10136 1005048007948 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1005048007949 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 1005048007950 Walker A motif; other site 1005048007951 ATP binding site [chemical binding]; other site 1005048007952 Walker B motif; other site 1005048007953 arginine finger; other site 1005048007954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1005048007955 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048007956 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 1005048007957 active site 1005048007958 phosphorylation site [posttranslational modification] 1005048007959 intermolecular recognition site; other site 1005048007960 dimerization interface [polypeptide binding]; other site 1005048007961 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1005048007962 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 1005048007963 ATP binding site [chemical binding]; other site 1005048007964 Mg2+ binding site [ion binding]; other site 1005048007965 G-X-G motif; other site 1005048007966 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 1005048007967 anchoring element; other site 1005048007968 dimer interface [polypeptide binding]; other site 1005048007969 ATP binding site [chemical binding]; other site 1005048007970 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 1005048007971 active site 1005048007972 metal binding site [ion binding]; metal-binding site 1005048007973 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1005048007974 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1005048007975 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 1005048007976 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048007977 catalytic residue [active] 1005048007978 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1005048007979 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 1005048007980 CAP-like domain; other site 1005048007981 active site 1005048007982 primary dimer interface [polypeptide binding]; other site 1005048007983 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048007984 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1005048007985 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 1005048007986 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048007987 homodimer interface [polypeptide binding]; other site 1005048007988 catalytic residue [active] 1005048007989 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1005048007990 homotrimer interaction site [polypeptide binding]; other site 1005048007991 putative active site [active] 1005048007992 EamA-like transporter family; Region: EamA; pfam00892 1005048007993 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048007994 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1005048007995 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 1005048007996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048007997 DNA-binding site [nucleotide binding]; DNA binding site 1005048007998 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 1005048007999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048008000 homodimer interface [polypeptide binding]; other site 1005048008001 catalytic residue [active] 1005048008002 heat shock protein 90; Provisional; Region: PRK05218 1005048008003 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 1005048008004 ATP binding site [chemical binding]; other site 1005048008005 Mg2+ binding site [ion binding]; other site 1005048008006 G-X-G motif; other site 1005048008007 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 1005048008008 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 1005048008009 binding surface 1005048008010 TPR motif; other site 1005048008011 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1005048008012 RNA polymerase sigma factor; Provisional; Region: PRK12513 1005048008013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048008014 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 1005048008015 DNA binding residues [nucleotide binding] 1005048008016 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1005048008017 oligomeric interface; other site 1005048008018 putative active site [active] 1005048008019 homodimer interface [polypeptide binding]; other site 1005048008020 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1005048008021 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048008022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048008023 NAD(P) binding site [chemical binding]; other site 1005048008024 active site 1005048008025 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1005048008026 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 1005048008027 substrate-cofactor binding pocket; other site 1005048008028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048008029 catalytic residue [active] 1005048008030 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048008031 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 1005048008032 non-specific DNA binding site [nucleotide binding]; other site 1005048008033 salt bridge; other site 1005048008034 sequence-specific DNA binding site [nucleotide binding]; other site 1005048008035 Cupin domain; Region: Cupin_2; pfam07883 1005048008036 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1005048008037 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 1005048008038 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 1005048008039 FeS/SAM binding site; other site 1005048008040 short chain dehydrogenase; Provisional; Region: PRK06123 1005048008041 classical (c) SDRs; Region: SDR_c; cd05233 1005048008042 NAD(P) binding site [chemical binding]; other site 1005048008043 active site 1005048008044 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1005048008045 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048008046 acyl-activating enzyme (AAE) consensus motif; other site 1005048008047 AMP binding site [chemical binding]; other site 1005048008048 active site 1005048008049 CoA binding site [chemical binding]; other site 1005048008050 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048008051 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048008052 Walker A/P-loop; other site 1005048008053 ATP binding site [chemical binding]; other site 1005048008054 Q-loop/lid; other site 1005048008055 ABC transporter signature motif; other site 1005048008056 Walker B; other site 1005048008057 D-loop; other site 1005048008058 H-loop/switch region; other site 1005048008059 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 1005048008060 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048008061 putative ligand binding site [chemical binding]; other site 1005048008062 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048008063 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 1005048008064 TM-ABC transporter signature motif; other site 1005048008065 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 1005048008066 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048008067 TM-ABC transporter signature motif; other site 1005048008068 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048008069 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048008070 Walker A/P-loop; other site 1005048008071 ATP binding site [chemical binding]; other site 1005048008072 Q-loop/lid; other site 1005048008073 ABC transporter signature motif; other site 1005048008074 Walker B; other site 1005048008075 D-loop; other site 1005048008076 H-loop/switch region; other site 1005048008077 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1005048008078 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1005048008079 acyl-activating enzyme (AAE) consensus motif; other site 1005048008080 putative AMP binding site [chemical binding]; other site 1005048008081 putative active site [active] 1005048008082 putative CoA binding site [chemical binding]; other site 1005048008083 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005048008084 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 1005048008085 ligand binding site [chemical binding]; other site 1005048008086 flexible hinge region; other site 1005048008087 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1005048008088 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 1005048008089 S-adenosylmethionine binding site [chemical binding]; other site 1005048008090 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1005048008091 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1005048008092 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 1005048008093 Walker A motif; other site 1005048008094 ATP binding site [chemical binding]; other site 1005048008095 Walker B motif; other site 1005048008096 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048008097 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048008098 6-phosphofructokinase; Provisional; Region: PRK14072 1005048008099 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1005048008100 active site 1005048008101 ADP/pyrophosphate binding site [chemical binding]; other site 1005048008102 allosteric effector site; other site 1005048008103 dimerization interface [polypeptide binding]; other site 1005048008104 fructose-1,6-bisphosphate binding site; other site 1005048008105 Class I aldolases; Region: Aldolase_Class_I; cl17187 1005048008106 catalytic residue [active] 1005048008107 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1005048008108 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005048008109 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1005048008110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1005048008111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1005048008112 Peptidase C13 family; Region: Peptidase_C13; cl02159 1005048008113 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_24; cd09012 1005048008114 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048008115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1005048008116 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1005048008117 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048008118 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1005048008119 DNA binding residues [nucleotide binding] 1005048008120 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048008121 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 1005048008122 non-specific DNA binding site [nucleotide binding]; other site 1005048008123 salt bridge; other site 1005048008124 sequence-specific DNA binding site [nucleotide binding]; other site 1005048008125 Cupin domain; Region: Cupin_2; cl17218 1005048008126 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048008127 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048008128 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 1005048008129 protein binding site [polypeptide binding]; other site 1005048008130 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 1005048008131 Active site serine [active] 1005048008132 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048008133 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1005048008134 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1005048008135 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1005048008136 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1005048008137 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 1005048008138 putative active site [active] 1005048008139 putative NTP binding site [chemical binding]; other site 1005048008140 putative nucleic acid binding site [nucleotide binding]; other site 1005048008141 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 1005048008142 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1005048008143 active site 1005048008144 DNA binding site [nucleotide binding] 1005048008145 Int/Topo IB signature motif; other site 1005048008146 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048008147 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048008148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048008149 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048008150 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048008151 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048008152 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1005048008153 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048008154 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 1005048008155 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048008156 putative substrate translocation pore; other site 1005048008157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048008158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048008159 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048008160 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1005048008161 FMN binding site [chemical binding]; other site 1005048008162 active site 1005048008163 substrate binding site [chemical binding]; other site 1005048008164 catalytic residue [active] 1005048008165 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1005048008166 trimer interface; other site 1005048008167 sugar binding site [chemical binding]; other site 1005048008168 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1005048008169 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1005048008170 FAD binding site [chemical binding]; other site 1005048008171 substrate binding pocket [chemical binding]; other site 1005048008172 catalytic base [active] 1005048008173 manganese transport protein MntH; Reviewed; Region: PRK00701 1005048008174 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1005048008175 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 1005048008176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008178 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 1005048008179 dimerization interface [polypeptide binding]; other site 1005048008180 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 1005048008181 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 1005048008182 dimerization interface [polypeptide binding]; other site 1005048008183 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 1005048008184 dimer interface [polypeptide binding]; other site 1005048008185 phosphorylation site [posttranslational modification] 1005048008186 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 1005048008187 ATP binding site [chemical binding]; other site 1005048008188 Mg2+ binding site [ion binding]; other site 1005048008189 G-X-G motif; other site 1005048008190 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048008191 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 1005048008192 active site 1005048008193 phosphorylation site [posttranslational modification] 1005048008194 intermolecular recognition site; other site 1005048008195 dimerization interface [polypeptide binding]; other site 1005048008196 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 1005048008197 DNA binding site [nucleotide binding] 1005048008198 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048008199 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048008200 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005048008201 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1005048008202 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1005048008203 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1005048008204 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 1005048008205 dimer interface [polypeptide binding]; other site 1005048008206 conserved gate region; other site 1005048008207 putative PBP binding loops; other site 1005048008208 ABC-ATPase subunit interface; other site 1005048008209 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1005048008210 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 1005048008211 dimer interface [polypeptide binding]; other site 1005048008212 conserved gate region; other site 1005048008213 putative PBP binding loops; other site 1005048008214 ABC-ATPase subunit interface; other site 1005048008215 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1005048008216 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1005048008217 Walker A/P-loop; other site 1005048008218 ATP binding site [chemical binding]; other site 1005048008219 Q-loop/lid; other site 1005048008220 ABC transporter signature motif; other site 1005048008221 Walker B; other site 1005048008222 D-loop; other site 1005048008223 H-loop/switch region; other site 1005048008224 TOBE domain; Region: TOBE_2; pfam08402 1005048008225 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1005048008226 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1005048008227 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1005048008228 active site 1005048008229 dimer interface [polypeptide binding]; other site 1005048008230 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1005048008231 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 1005048008232 dimer interface [polypeptide binding]; other site 1005048008233 active site 1005048008234 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 1005048008235 dimer interface [polypeptide binding]; other site 1005048008236 active site 1005048008237 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1005048008238 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1005048008239 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1005048008240 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1005048008241 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1005048008242 classical (c) SDRs; Region: SDR_c; cd05233 1005048008243 NAD(P) binding site [chemical binding]; other site 1005048008244 active site 1005048008245 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048008246 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 1005048008247 substrate binding pocket [chemical binding]; other site 1005048008248 membrane-bound complex binding site; other site 1005048008249 hinge residues; other site 1005048008250 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005048008251 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 1005048008252 dimer interface [polypeptide binding]; other site 1005048008253 conserved gate region; other site 1005048008254 putative PBP binding loops; other site 1005048008255 ABC-ATPase subunit interface; other site 1005048008256 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 1005048008257 dimer interface [polypeptide binding]; other site 1005048008258 conserved gate region; other site 1005048008259 putative PBP binding loops; other site 1005048008260 ABC-ATPase subunit interface; other site 1005048008261 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1005048008262 DNA Polymerase Y-family; Region: PolY_like; cd03468 1005048008263 active site 1005048008264 DNA binding site [nucleotide binding] 1005048008265 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1005048008266 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1005048008267 putative active site [active] 1005048008268 putative PHP Thumb interface [polypeptide binding]; other site 1005048008269 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 1005048008270 generic binding surface II; other site 1005048008271 generic binding surface I; other site 1005048008272 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 1005048008273 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048008274 putative substrate translocation pore; other site 1005048008275 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005048008276 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1005048008277 N-terminal domain interface [polypeptide binding]; other site 1005048008278 dimer interface [polypeptide binding]; other site 1005048008279 substrate binding pocket (H-site) [chemical binding]; other site 1005048008280 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1005048008281 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 1005048008282 motif II; other site 1005048008283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048008284 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 1005048008285 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 1005048008286 dimer interface [polypeptide binding]; other site 1005048008287 phosphorylation site [posttranslational modification] 1005048008288 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 1005048008289 ATP binding site [chemical binding]; other site 1005048008290 Mg2+ binding site [ion binding]; other site 1005048008291 G-X-G motif; other site 1005048008292 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048008293 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 1005048008294 active site 1005048008295 phosphorylation site [posttranslational modification] 1005048008296 intermolecular recognition site; other site 1005048008297 dimerization interface [polypeptide binding]; other site 1005048008298 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1005048008299 DNA binding site [nucleotide binding] 1005048008300 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1005048008301 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1005048008302 OsmC-like protein; Region: OsmC; cl00767 1005048008303 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1005048008304 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1005048008305 Cl binding site [ion binding]; other site 1005048008306 oligomer interface [polypeptide binding]; other site 1005048008307 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1005048008308 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1005048008309 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1005048008310 G1 box; other site 1005048008311 GTP/Mg2+ binding site [chemical binding]; other site 1005048008312 G2 box; other site 1005048008313 Switch I region; other site 1005048008314 G3 box; other site 1005048008315 Switch II region; other site 1005048008316 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 1005048008317 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1005048008318 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 1005048008319 substrate binding pocket [chemical binding]; other site 1005048008320 membrane-bound complex binding site; other site 1005048008321 hinge residues; other site 1005048008322 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1005048008323 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1005048008324 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1005048008325 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1005048008326 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1005048008327 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1005048008328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048008329 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 1005048008330 active site 1005048008331 phosphorylation site [posttranslational modification] 1005048008332 intermolecular recognition site; other site 1005048008333 dimerization interface [polypeptide binding]; other site 1005048008334 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 1005048008335 DNA binding residues [nucleotide binding] 1005048008336 dimerization interface [polypeptide binding]; other site 1005048008337 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1005048008338 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1005048008339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1005048008340 Histidine kinase; Region: HisKA_3; pfam07730 1005048008341 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 1005048008342 ATP binding site [chemical binding]; other site 1005048008343 Mg2+ binding site [ion binding]; other site 1005048008344 G-X-G motif; other site 1005048008345 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008347 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1005048008348 putative dimerization interface [polypeptide binding]; other site 1005048008349 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048008350 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048008351 citrate-proton symporter; Provisional; Region: PRK15075 1005048008352 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 1005048008353 putative substrate translocation pore; other site 1005048008354 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 1005048008355 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 1005048008356 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1005048008357 sugar binding site [chemical binding]; other site 1005048008358 VPS10 domain; Region: VPS10; smart00602 1005048008359 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1005048008360 Beta-lactamase; Region: Beta-lactamase; pfam00144 1005048008361 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1005048008362 active site 1005048008363 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1005048008364 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048008365 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048008366 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1005048008367 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1005048008368 Autotransporter beta-domain; Region: Autotransporter; smart00869 1005048008369 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1005048008370 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 1005048008371 dimerization interface [polypeptide binding]; other site 1005048008372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1005048008373 dimer interface [polypeptide binding]; other site 1005048008374 putative CheW interface [polypeptide binding]; other site 1005048008375 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1005048008376 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1005048008377 metal binding site [ion binding]; metal-binding site 1005048008378 dimer interface [polypeptide binding]; other site 1005048008379 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048008380 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 1005048008381 active site 1005048008382 metal binding site [ion binding]; metal-binding site 1005048008383 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1005048008384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048008385 DNA-binding site [nucleotide binding]; DNA binding site 1005048008386 UTRA domain; Region: UTRA; pfam07702 1005048008387 putative oxidoreductase; Provisional; Region: PRK08275 1005048008388 L-aspartate oxidase; Provisional; Region: PRK06175 1005048008389 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1005048008390 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1005048008391 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1005048008392 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1005048008393 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 1005048008394 substrate binding pocket [chemical binding]; other site 1005048008395 membrane-bound complex binding site; other site 1005048008396 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048008397 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 1005048008398 dimer interface [polypeptide binding]; other site 1005048008399 conserved gate region; other site 1005048008400 putative PBP binding loops; other site 1005048008401 ABC-ATPase subunit interface; other site 1005048008402 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048008403 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048008404 Walker A/P-loop; other site 1005048008405 ATP binding site [chemical binding]; other site 1005048008406 Q-loop/lid; other site 1005048008407 ABC transporter signature motif; other site 1005048008408 Walker B; other site 1005048008409 D-loop; other site 1005048008410 H-loop/switch region; other site 1005048008411 HEAT repeats; Region: HEAT_2; pfam13646 1005048008412 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 1005048008413 protein binding surface [polypeptide binding]; other site 1005048008414 HEAT repeats; Region: HEAT_2; pfam13646 1005048008415 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1005048008416 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 1005048008417 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048008418 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005048008419 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048008420 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048008421 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1005048008422 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1005048008423 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048008424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048008425 Walker A/P-loop; other site 1005048008426 ATP binding site [chemical binding]; other site 1005048008427 Q-loop/lid; other site 1005048008428 ABC transporter signature motif; other site 1005048008429 Walker B; other site 1005048008430 D-loop; other site 1005048008431 H-loop/switch region; other site 1005048008432 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1005048008433 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 1005048008434 active site 1005048008435 Int/Topo IB signature motif; other site 1005048008436 seryl-tRNA synthetase; Provisional; Region: PRK05431 1005048008437 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1005048008438 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 1005048008439 dimer interface [polypeptide binding]; other site 1005048008440 active site 1005048008441 motif 1; other site 1005048008442 motif 2; other site 1005048008443 motif 3; other site 1005048008444 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048008445 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1005048008446 peptide binding site [polypeptide binding]; other site 1005048008447 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1005048008448 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1005048008449 metal binding site [ion binding]; metal-binding site 1005048008450 putative dimer interface [polypeptide binding]; other site 1005048008451 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 1005048008452 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1005048008453 FMN binding site [chemical binding]; other site 1005048008454 active site 1005048008455 homodimer interface [polypeptide binding]; other site 1005048008456 putative catalytic residue [active] 1005048008457 4Fe-4S cluster binding site [ion binding]; other site 1005048008458 PAS fold; Region: PAS_4; pfam08448 1005048008459 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 1005048008460 putative active site [active] 1005048008461 heme pocket [chemical binding]; other site 1005048008462 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1005048008463 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 1005048008464 Walker A motif; other site 1005048008465 ATP binding site [chemical binding]; other site 1005048008466 Walker B motif; other site 1005048008467 arginine finger; other site 1005048008468 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1005048008469 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048008470 Walker A/P-loop; other site 1005048008471 ATP binding site [chemical binding]; other site 1005048008472 Q-loop/lid; other site 1005048008473 ABC transporter signature motif; other site 1005048008474 Walker B; other site 1005048008475 D-loop; other site 1005048008476 H-loop/switch region; other site 1005048008477 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005048008478 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1005048008479 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048008480 Walker A/P-loop; other site 1005048008481 ATP binding site [chemical binding]; other site 1005048008482 Q-loop/lid; other site 1005048008483 ABC transporter signature motif; other site 1005048008484 Walker B; other site 1005048008485 D-loop; other site 1005048008486 H-loop/switch region; other site 1005048008487 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1005048008488 dipeptide transporter; Provisional; Region: PRK10913 1005048008489 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 1005048008490 putative PBP binding loops; other site 1005048008491 dimer interface [polypeptide binding]; other site 1005048008492 ABC-ATPase subunit interface; other site 1005048008493 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1005048008494 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 1005048008495 dimer interface [polypeptide binding]; other site 1005048008496 conserved gate region; other site 1005048008497 putative PBP binding loops; other site 1005048008498 ABC-ATPase subunit interface; other site 1005048008499 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048008500 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1005048008501 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048008502 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1005048008503 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1005048008504 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1005048008505 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 1005048008506 active site 1005048008507 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 1005048008508 non-specific DNA binding site [nucleotide binding]; other site 1005048008509 salt bridge; other site 1005048008510 sequence-specific DNA binding site [nucleotide binding]; other site 1005048008511 Cupin domain; Region: Cupin_2; pfam07883 1005048008512 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 1005048008513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048008514 substrate binding pocket [chemical binding]; other site 1005048008515 membrane-bound complex binding site; other site 1005048008516 hinge residues; other site 1005048008517 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 1005048008518 dimer interface [polypeptide binding]; other site 1005048008519 conserved gate region; other site 1005048008520 putative PBP binding loops; other site 1005048008521 ABC-ATPase subunit interface; other site 1005048008522 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1005048008523 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005048008524 Walker A/P-loop; other site 1005048008525 ATP binding site [chemical binding]; other site 1005048008526 Q-loop/lid; other site 1005048008527 ABC transporter signature motif; other site 1005048008528 Walker B; other site 1005048008529 D-loop; other site 1005048008530 H-loop/switch region; other site 1005048008531 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1005048008532 hypothetical protein; Provisional; Region: PRK07475 1005048008533 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048008534 Predicted periplasmic protein [Function unknown]; Region: COG3904 1005048008535 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048008536 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1005048008537 Zn binding site [ion binding]; other site 1005048008538 Secretin and TonB N terminus short domain; Region: STN; smart00965 1005048008539 Secretin and TonB N terminus short domain; Region: STN; smart00965 1005048008540 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048008541 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 1005048008542 N-terminal plug; other site 1005048008543 ligand-binding site [chemical binding]; other site 1005048008544 fec operon regulator FecR; Reviewed; Region: PRK09774 1005048008545 FecR protein; Region: FecR; pfam04773 1005048008546 RNA polymerase sigma factor; Provisional; Region: PRK12528 1005048008547 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048008548 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 1005048008549 DNA binding residues [nucleotide binding] 1005048008550 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 1005048008551 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1005048008552 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1005048008553 Na binding site [ion binding]; other site 1005048008554 putative substrate binding site [chemical binding]; other site 1005048008555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048008556 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048008557 DNA-binding site [nucleotide binding]; DNA binding site 1005048008558 FCD domain; Region: FCD; pfam07729 1005048008559 recombination factor protein RarA; Reviewed; Region: PRK13342 1005048008560 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 1005048008561 Walker A motif; other site 1005048008562 ATP binding site [chemical binding]; other site 1005048008563 Walker B motif; other site 1005048008564 arginine finger; other site 1005048008565 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1005048008566 Ferredoxin [Energy production and conversion]; Region: COG1146 1005048008567 4Fe-4S binding domain; Region: Fer4; cl02805 1005048008568 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1005048008569 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1005048008570 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1005048008571 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1005048008572 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1005048008573 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1005048008574 thioredoxin reductase; Provisional; Region: PRK10262 1005048008575 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048008576 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048008577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1005048008578 Smr domain; Region: Smr; pfam01713 1005048008579 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1005048008580 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1005048008581 Protein export membrane protein; Region: SecD_SecF; cl14618 1005048008582 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048008583 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048008584 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048008585 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1005048008586 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1005048008587 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1005048008588 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 1005048008589 active site 1005048008590 substrate binding site [chemical binding]; other site 1005048008591 metal binding site [ion binding]; metal-binding site 1005048008592 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1005048008593 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1005048008594 Substrate binding site; other site 1005048008595 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1005048008596 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1005048008597 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1005048008598 active site 1005048008599 Substrate binding site; other site 1005048008600 Mg++ binding site; other site 1005048008601 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1005048008602 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1005048008603 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1005048008604 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1005048008605 colanic acid exporter; Provisional; Region: PRK10459 1005048008606 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1005048008607 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 1005048008608 active site 1005048008609 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1005048008610 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048008611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1005048008612 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 1005048008613 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 1005048008614 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 1005048008615 chain length determinant protein EpsF; Region: EpsF; TIGR03017 1005048008616 Chain length determinant protein; Region: Wzz; cl15801 1005048008617 Chain length determinant protein; Region: Wzz; cl15801 1005048008618 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1005048008619 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1005048008620 SLBB domain; Region: SLBB; pfam10531 1005048008621 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1005048008622 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1005048008623 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 1005048008624 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1005048008625 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1005048008626 active site 1005048008627 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005048008628 MarR family; Region: MarR_2; pfam12802 1005048008629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048008630 Coenzyme A binding pocket [chemical binding]; other site 1005048008631 enoyl-CoA hydratase; Validated; Region: PRK08139 1005048008632 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 1005048008633 substrate binding site [chemical binding]; other site 1005048008634 oxyanion hole (OAH) forming residues; other site 1005048008635 trimer interface [polypeptide binding]; other site 1005048008636 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1005048008637 Cation efflux family; Region: Cation_efflux; pfam01545 1005048008638 Predicted flavoprotein [General function prediction only]; Region: COG0431 1005048008639 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048008640 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1005048008641 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 1005048008642 active site 1005048008643 DNA binding site [nucleotide binding] 1005048008644 Int/Topo IB signature motif; other site 1005048008645 catalytic residues [active] 1005048008646 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1005048008647 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1005048008648 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1005048008649 active site 1005048008650 non-prolyl cis peptide bond; other site 1005048008651 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1005048008652 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1005048008653 Flavin binding site [chemical binding]; other site 1005048008654 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1005048008655 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1005048008656 Flavin binding site [chemical binding]; other site 1005048008657 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1005048008658 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1005048008659 NAD synthetase; Reviewed; Region: nadE; PRK02628 1005048008660 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1005048008661 multimer interface [polypeptide binding]; other site 1005048008662 active site 1005048008663 catalytic triad [active] 1005048008664 protein interface 1 [polypeptide binding]; other site 1005048008665 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 1005048008666 homodimer interface [polypeptide binding]; other site 1005048008667 NAD binding pocket [chemical binding]; other site 1005048008668 ATP binding pocket [chemical binding]; other site 1005048008669 Mg binding site [ion binding]; other site 1005048008670 active-site loop [active] 1005048008671 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1005048008672 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1005048008673 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 1005048008674 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048008675 putative substrate translocation pore; other site 1005048008676 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005048008677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008679 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 1005048008680 putative effector binding pocket; other site 1005048008681 dimerization interface [polypeptide binding]; other site 1005048008682 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1005048008683 EamA-like transporter family; Region: EamA; pfam00892 1005048008684 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1005048008685 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 1005048008686 dimer interface [polypeptide binding]; other site 1005048008687 substrate binding site [chemical binding]; other site 1005048008688 metal binding sites [ion binding]; metal-binding site 1005048008689 Predicted transcriptional regulators [Transcription]; Region: COG1510 1005048008690 MarR family; Region: MarR_2; pfam12802 1005048008691 Pneumovirus nucleocapsid protein; Region: Pneumo_ncap; pfam03246 1005048008692 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1005048008693 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1005048008694 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1005048008695 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1005048008696 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1005048008697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1005048008698 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1005048008699 elongation factor P; Validated; Region: PRK00529 1005048008700 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1005048008701 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 1005048008702 RNA binding site [nucleotide binding]; other site 1005048008703 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 1005048008704 RNA binding site [nucleotide binding]; other site 1005048008705 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005048008706 Predicted transcriptional regulator [Transcription]; Region: COG1959 1005048008707 Transcriptional regulator; Region: Rrf2; pfam02082 1005048008708 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1005048008709 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1005048008710 tetrameric interface [polypeptide binding]; other site 1005048008711 NAD binding site [chemical binding]; other site 1005048008712 catalytic residues [active] 1005048008713 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048008714 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 1005048008715 putative ligand binding site [chemical binding]; other site 1005048008716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008718 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 1005048008719 dimerization interface [polypeptide binding]; other site 1005048008720 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048008721 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 1005048008722 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1005048008723 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 1005048008724 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048008725 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1005048008726 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1005048008727 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 1005048008728 putative substrate translocation pore; other site 1005048008729 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1005048008730 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005048008731 Walker A/P-loop; other site 1005048008732 ATP binding site [chemical binding]; other site 1005048008733 Q-loop/lid; other site 1005048008734 ABC transporter signature motif; other site 1005048008735 Walker B; other site 1005048008736 D-loop; other site 1005048008737 H-loop/switch region; other site 1005048008738 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1005048008739 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1005048008740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048008741 Coenzyme A binding pocket [chemical binding]; other site 1005048008742 Predicted permease; Region: DUF318; cl17795 1005048008743 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1005048008744 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008746 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 1005048008747 putative effector binding pocket; other site 1005048008748 dimerization interface [polypeptide binding]; other site 1005048008749 hypothetical protein; Provisional; Region: PRK06489 1005048008750 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1005048008751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008753 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1005048008754 putative effector binding pocket; other site 1005048008755 putative dimerization interface [polypeptide binding]; other site 1005048008756 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1005048008757 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1005048008758 PhnA protein; Region: PhnA; pfam03831 1005048008759 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1005048008760 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1005048008761 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1005048008762 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1005048008763 dimer interface [polypeptide binding]; other site 1005048008764 active site 1005048008765 heme binding site [chemical binding]; other site 1005048008766 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1005048008767 heme binding site [chemical binding]; other site 1005048008768 short chain dehydrogenase; Provisional; Region: PRK06500 1005048008769 classical (c) SDRs; Region: SDR_c; cd05233 1005048008770 NAD(P) binding site [chemical binding]; other site 1005048008771 active site 1005048008772 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 1005048008773 S-adenosylmethionine binding site [chemical binding]; other site 1005048008774 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 1005048008775 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 1005048008776 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1005048008777 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1005048008778 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1005048008779 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048008780 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048008781 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1005048008782 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1005048008783 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1005048008784 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048008785 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048008786 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1005048008787 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1005048008788 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1005048008789 putative active site [active] 1005048008790 catalytic site [active] 1005048008791 putative metal binding site [ion binding]; other site 1005048008792 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1005048008793 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 1005048008794 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 1005048008795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048008796 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048008797 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048008798 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048008799 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1005048008800 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 1005048008801 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048008802 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 1005048008803 dimer interface [polypeptide binding]; other site 1005048008804 conserved gate region; other site 1005048008805 putative PBP binding loops; other site 1005048008806 ABC-ATPase subunit interface; other site 1005048008807 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048008808 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048008809 Walker A/P-loop; other site 1005048008810 ATP binding site [chemical binding]; other site 1005048008811 Q-loop/lid; other site 1005048008812 ABC transporter signature motif; other site 1005048008813 Walker B; other site 1005048008814 D-loop; other site 1005048008815 H-loop/switch region; other site 1005048008816 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1005048008817 NMT1-like family; Region: NMT1_2; pfam13379 1005048008818 recombination protein RecR; Reviewed; Region: recR; PRK00076 1005048008819 RecR protein; Region: RecR; pfam02132 1005048008820 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 1005048008821 putative active site [active] 1005048008822 putative metal-binding site [ion binding]; other site 1005048008823 tetramer interface [polypeptide binding]; other site 1005048008824 hypothetical protein; Validated; Region: PRK00153 1005048008825 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1005048008826 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 1005048008827 Walker A motif; other site 1005048008828 ATP binding site [chemical binding]; other site 1005048008829 Walker B motif; other site 1005048008830 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1005048008831 arginine finger; other site 1005048008832 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1005048008833 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1005048008834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048008835 active site 1005048008836 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1005048008837 Transglycosylase; Region: Transgly; pfam00912 1005048008838 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1005048008839 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048008840 PGAP1-like protein; Region: PGAP1; pfam07819 1005048008841 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1005048008842 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1005048008843 Competence protein; Region: Competence; pfam03772 1005048008844 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1005048008845 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1005048008846 active site 1005048008847 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1005048008848 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1005048008849 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1005048008850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008852 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 1005048008853 dimerization interface [polypeptide binding]; other site 1005048008854 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1005048008855 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 1005048008856 putative substrate translocation pore; other site 1005048008857 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1005048008858 potential frameshift: common BLAST hit: gi|163856545|ref|YP_001630843.1| amidase 1005048008859 Amidase; Region: Amidase; cl11426 1005048008860 Amidase; Region: Amidase; cl11426 1005048008861 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 1005048008862 short chain dehydrogenase; Provisional; Region: PRK09134 1005048008863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048008864 NAD(P) binding site [chemical binding]; other site 1005048008865 active site 1005048008866 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1005048008867 aromatic arch; other site 1005048008868 DCoH dimer interaction site [polypeptide binding]; other site 1005048008869 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1005048008870 DCoH tetramer interaction site [polypeptide binding]; other site 1005048008871 substrate binding site [chemical binding]; other site 1005048008872 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 1005048008873 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048008874 Predicted flavoprotein [General function prediction only]; Region: COG0431 1005048008875 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1005048008876 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048008877 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 1005048008878 putative C-terminal domain interface [polypeptide binding]; other site 1005048008879 putative GSH binding site (G-site) [chemical binding]; other site 1005048008880 putative dimer interface [polypeptide binding]; other site 1005048008881 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1005048008882 dimer interface [polypeptide binding]; other site 1005048008883 N-terminal domain interface [polypeptide binding]; other site 1005048008884 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048008885 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 1005048008886 peptidase domain interface [polypeptide binding]; other site 1005048008887 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 1005048008888 active site 1005048008889 catalytic triad [active] 1005048008890 calcium binding site [ion binding]; other site 1005048008891 EamA-like transporter family; Region: EamA; pfam00892 1005048008892 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005048008893 EamA-like transporter family; Region: EamA; pfam00892 1005048008894 Biofilm formation and stress response factor; Region: BsmA; pfam10014 1005048008895 argininosuccinate synthase; Provisional; Region: PRK13820 1005048008896 Arginosuccinate synthase; Region: Arginosuc_synth; cl17227 1005048008897 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048008898 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048008899 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 1005048008900 putative effector binding pocket; other site 1005048008901 dimerization interface [polypeptide binding]; other site 1005048008902 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048008903 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 1005048008904 active site 1005048008905 phosphorylation site [posttranslational modification] 1005048008906 intermolecular recognition site; other site 1005048008907 dimerization interface [polypeptide binding]; other site 1005048008908 CHASE3 domain; Region: CHASE3; pfam05227 1005048008909 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048008910 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 1005048008911 dimer interface [polypeptide binding]; other site 1005048008912 phosphorylation site [posttranslational modification] 1005048008913 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 1005048008914 ATP binding site [chemical binding]; other site 1005048008915 Mg2+ binding site [ion binding]; other site 1005048008916 G-X-G motif; other site 1005048008917 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048008918 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 1005048008919 active site 1005048008920 phosphorylation site [posttranslational modification] 1005048008921 intermolecular recognition site; other site 1005048008922 dimerization interface [polypeptide binding]; other site 1005048008923 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048008924 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 1005048008925 DNA binding residues [nucleotide binding] 1005048008926 dimerization interface [polypeptide binding]; other site 1005048008927 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1005048008928 SnoaL-like domain; Region: SnoaL_3; pfam13474 1005048008929 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1005048008930 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1005048008931 dimer interface [polypeptide binding]; other site 1005048008932 active site 1005048008933 catalytic residue [active] 1005048008934 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1005048008935 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048008936 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1005048008937 putative ligand binding site [chemical binding]; other site 1005048008938 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 1005048008939 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048008940 TM-ABC transporter signature motif; other site 1005048008941 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048008942 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 1005048008943 TM-ABC transporter signature motif; other site 1005048008944 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1005048008945 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048008946 Walker A/P-loop; other site 1005048008947 ATP binding site [chemical binding]; other site 1005048008948 Q-loop/lid; other site 1005048008949 ABC transporter signature motif; other site 1005048008950 Walker B; other site 1005048008951 D-loop; other site 1005048008952 H-loop/switch region; other site 1005048008953 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1005048008954 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048008955 Walker A/P-loop; other site 1005048008956 ATP binding site [chemical binding]; other site 1005048008957 Q-loop/lid; other site 1005048008958 ABC transporter signature motif; other site 1005048008959 Walker B; other site 1005048008960 D-loop; other site 1005048008961 H-loop/switch region; other site 1005048008962 UreD urease accessory protein; Region: UreD; pfam01774 1005048008963 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 1005048008964 alpha-gamma subunit interface [polypeptide binding]; other site 1005048008965 beta-gamma subunit interface [polypeptide binding]; other site 1005048008966 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 1005048008967 gamma-beta subunit interface [polypeptide binding]; other site 1005048008968 alpha-beta subunit interface [polypeptide binding]; other site 1005048008969 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1005048008970 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 1005048008971 subunit interactions [polypeptide binding]; other site 1005048008972 active site 1005048008973 flap region; other site 1005048008974 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 1005048008975 dimer interface [polypeptide binding]; other site 1005048008976 catalytic residues [active] 1005048008977 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1005048008978 UreF; Region: UreF; pfam01730 1005048008979 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 1005048008980 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1005048008981 Pirin-related protein [General function prediction only]; Region: COG1741 1005048008982 Pirin; Region: Pirin; pfam02678 1005048008983 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1005048008984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048008985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048008986 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005048008987 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048008988 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 1005048008989 dimerization interface [polypeptide binding]; other site 1005048008990 putative DNA binding site [nucleotide binding]; other site 1005048008991 putative Zn2+ binding site [ion binding]; other site 1005048008992 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048008993 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1005048008994 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1005048008995 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1005048008996 GIY-YIG motif/motif A; other site 1005048008997 active site 1005048008998 catalytic site [active] 1005048008999 putative DNA binding site [nucleotide binding]; other site 1005048009000 metal binding site [ion binding]; metal-binding site 1005048009001 UvrB/uvrC motif; Region: UVR; pfam02151 1005048009002 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1005048009003 beta-hexosaminidase; Provisional; Region: PRK05337 1005048009004 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1005048009005 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1005048009006 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 1005048009007 active site 1005048009008 hydrophilic channel; other site 1005048009009 dimerization interface [polypeptide binding]; other site 1005048009010 catalytic residues [active] 1005048009011 active site lid [active] 1005048009012 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1005048009013 Recombination protein O N terminal; Region: RecO_N; pfam11967 1005048009014 Recombination protein O C terminal; Region: RecO_C; pfam02565 1005048009015 GTPase Era; Reviewed; Region: era; PRK00089 1005048009016 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1005048009017 G1 box; other site 1005048009018 GTP/Mg2+ binding site [chemical binding]; other site 1005048009019 Switch I region; other site 1005048009020 G2 box; other site 1005048009021 Switch II region; other site 1005048009022 G3 box; other site 1005048009023 G4 box; other site 1005048009024 G5 box; other site 1005048009025 KH domain; Region: KH_2; pfam07650 1005048009026 ribonuclease III; Reviewed; Region: rnc; PRK00102 1005048009027 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 1005048009028 dimerization interface [polypeptide binding]; other site 1005048009029 active site 1005048009030 metal binding site [ion binding]; metal-binding site 1005048009031 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 1005048009032 dsRNA binding site [nucleotide binding]; other site 1005048009033 signal peptidase I; Provisional; Region: PRK10861 1005048009034 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 1005048009035 Catalytic site [active] 1005048009036 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 1005048009037 GTP-binding protein LepA; Provisional; Region: PRK05433 1005048009038 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1005048009039 G1 box; other site 1005048009040 putative GEF interaction site [polypeptide binding]; other site 1005048009041 GTP/Mg2+ binding site [chemical binding]; other site 1005048009042 Switch I region; other site 1005048009043 G2 box; other site 1005048009044 G3 box; other site 1005048009045 Switch II region; other site 1005048009046 G4 box; other site 1005048009047 G5 box; other site 1005048009048 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 1005048009049 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 1005048009050 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1005048009051 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1005048009052 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1005048009053 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1005048009054 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 1005048009055 protein binding site [polypeptide binding]; other site 1005048009056 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 1005048009057 protein binding site [polypeptide binding]; other site 1005048009058 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1005048009059 MucB/RseB family; Region: MucB_RseB; pfam03888 1005048009060 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1005048009061 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1005048009062 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048009063 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 1005048009064 DNA binding residues [nucleotide binding] 1005048009065 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1005048009066 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 1005048009067 dimer interface [polypeptide binding]; other site 1005048009068 active site 1005048009069 acyl carrier protein; Provisional; Region: acpP; PRK00982 1005048009070 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1005048009071 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1005048009072 NAD(P) binding site [chemical binding]; other site 1005048009073 homotetramer interface [polypeptide binding]; other site 1005048009074 homodimer interface [polypeptide binding]; other site 1005048009075 active site 1005048009076 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1005048009077 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1005048009078 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1005048009079 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 1005048009080 dimer interface [polypeptide binding]; other site 1005048009081 active site 1005048009082 CoA binding pocket [chemical binding]; other site 1005048009083 putative phosphate acyltransferase; Provisional; Region: PRK05331 1005048009084 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1005048009085 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1005048009086 Maf-like protein; Region: Maf; pfam02545 1005048009087 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 1005048009088 active site 1005048009089 dimer interface [polypeptide binding]; other site 1005048009090 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 1005048009091 putative SAM binding site [chemical binding]; other site 1005048009092 homodimer interface [polypeptide binding]; other site 1005048009093 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1005048009094 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1005048009095 tandem repeat interface [polypeptide binding]; other site 1005048009096 oligomer interface [polypeptide binding]; other site 1005048009097 active site residues [active] 1005048009098 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 1005048009099 iron-sulfur cluster [ion binding]; other site 1005048009100 [2Fe-2S] cluster binding site [ion binding]; other site 1005048009101 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1005048009102 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 1005048009103 motif II; other site 1005048009104 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1005048009105 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 1005048009106 RNA binding surface [nucleotide binding]; other site 1005048009107 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1005048009108 active site 1005048009109 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1005048009110 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 1005048009111 homodimer interface [polypeptide binding]; other site 1005048009112 oligonucleotide binding site [chemical binding]; other site 1005048009113 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1005048009114 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 1005048009115 FeS/SAM binding site; other site 1005048009116 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1005048009117 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1005048009118 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1005048009119 GTP binding site; other site 1005048009120 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1005048009121 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 1005048009122 dimer interface [polypeptide binding]; other site 1005048009123 putative functional site; other site 1005048009124 putative MPT binding site; other site 1005048009125 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005048009126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048009127 Coenzyme A binding pocket [chemical binding]; other site 1005048009128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048009129 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1005048009130 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 1005048009131 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048009132 conjugal transfer protein TrbH; Provisional; Region: PRK13883 1005048009133 RmuC family; Region: RmuC; pfam02646 1005048009134 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1005048009135 apolar tunnel; other site 1005048009136 heme binding site [chemical binding]; other site 1005048009137 dimerization interface [polypeptide binding]; other site 1005048009138 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1005048009139 FtsX-like permease family; Region: FtsX; pfam02687 1005048009140 FtsX-like permease family; Region: FtsX; pfam02687 1005048009141 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 1005048009142 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1005048009143 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1005048009144 Tetramer interface [polypeptide binding]; other site 1005048009145 active site 1005048009146 FMN-binding site [chemical binding]; other site 1005048009147 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1005048009148 active site 1005048009149 tetramer interface [polypeptide binding]; other site 1005048009150 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048009151 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1005048009152 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1005048009153 putative acyl-acceptor binding pocket; other site 1005048009154 FOG: CBS domain [General function prediction only]; Region: COG0517 1005048009155 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 1005048009156 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 1005048009157 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 1005048009158 homodimer interface [polypeptide binding]; other site 1005048009159 substrate-cofactor binding pocket; other site 1005048009160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048009161 catalytic residue [active] 1005048009162 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005048009163 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048009164 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1005048009165 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 1005048009166 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1005048009167 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1005048009168 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048009169 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1005048009170 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048009171 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048009172 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1005048009173 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048009174 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 1005048009175 BCCT family transporter; Region: BCCT; pfam02028 1005048009176 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 1005048009177 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 1005048009178 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1005048009179 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1005048009180 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1005048009181 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1005048009182 multimer interface [polypeptide binding]; other site 1005048009183 active site 1005048009184 catalytic triad [active] 1005048009185 dimer interface [polypeptide binding]; other site 1005048009186 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1005048009187 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048009188 Walker A/P-loop; other site 1005048009189 ATP binding site [chemical binding]; other site 1005048009190 Q-loop/lid; other site 1005048009191 ABC transporter signature motif; other site 1005048009192 Walker B; other site 1005048009193 D-loop; other site 1005048009194 H-loop/switch region; other site 1005048009195 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1005048009196 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048009197 Walker A/P-loop; other site 1005048009198 ATP binding site [chemical binding]; other site 1005048009199 Q-loop/lid; other site 1005048009200 ABC transporter signature motif; other site 1005048009201 Walker B; other site 1005048009202 D-loop; other site 1005048009203 H-loop/switch region; other site 1005048009204 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048009205 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 1005048009206 TM-ABC transporter signature motif; other site 1005048009207 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048009208 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 1005048009209 TM-ABC transporter signature motif; other site 1005048009210 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048009211 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1005048009212 putative ligand binding site [chemical binding]; other site 1005048009213 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1005048009214 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 1005048009215 dimer interface [polypeptide binding]; other site 1005048009216 phosphorylation site [posttranslational modification] 1005048009217 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 1005048009218 ATP binding site [chemical binding]; other site 1005048009219 Mg2+ binding site [ion binding]; other site 1005048009220 G-X-G motif; other site 1005048009221 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1005048009222 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 1005048009223 active site 1005048009224 phosphorylation site [posttranslational modification] 1005048009225 intermolecular recognition site; other site 1005048009226 dimerization interface [polypeptide binding]; other site 1005048009227 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048009228 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 1005048009229 active site 1005048009230 phosphorylation site [posttranslational modification] 1005048009231 intermolecular recognition site; other site 1005048009232 dimerization interface [polypeptide binding]; other site 1005048009233 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 1005048009234 DNA binding residues [nucleotide binding] 1005048009235 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1005048009236 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 1005048009237 active site 1005048009238 phosphorylation site [posttranslational modification] 1005048009239 intermolecular recognition site; other site 1005048009240 dimerization interface [polypeptide binding]; other site 1005048009241 LytTr DNA-binding domain; Region: LytTR; smart00850 1005048009242 Histidine kinase; Region: His_kinase; pfam06580 1005048009243 argininosuccinate lyase; Provisional; Region: PRK00855 1005048009244 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1005048009245 active sites [active] 1005048009246 tetramer interface [polypeptide binding]; other site 1005048009247 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048009248 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048009249 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048009250 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 1005048009251 TM-ABC transporter signature motif; other site 1005048009252 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048009253 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 1005048009254 TM-ABC transporter signature motif; other site 1005048009255 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048009256 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048009257 Walker A/P-loop; other site 1005048009258 ATP binding site [chemical binding]; other site 1005048009259 Q-loop/lid; other site 1005048009260 ABC transporter signature motif; other site 1005048009261 Walker B; other site 1005048009262 D-loop; other site 1005048009263 H-loop/switch region; other site 1005048009264 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048009265 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048009266 Walker A/P-loop; other site 1005048009267 ATP binding site [chemical binding]; other site 1005048009268 Q-loop/lid; other site 1005048009269 ABC transporter signature motif; other site 1005048009270 Walker B; other site 1005048009271 D-loop; other site 1005048009272 H-loop/switch region; other site 1005048009273 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1005048009274 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1005048009275 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1005048009276 Walker A/P-loop; other site 1005048009277 ATP binding site [chemical binding]; other site 1005048009278 Q-loop/lid; other site 1005048009279 ABC transporter signature motif; other site 1005048009280 Walker B; other site 1005048009281 D-loop; other site 1005048009282 H-loop/switch region; other site 1005048009283 transaldolase-like protein; Provisional; Region: PTZ00411 1005048009284 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1005048009285 active site 1005048009286 dimer interface [polypeptide binding]; other site 1005048009287 catalytic residue [active] 1005048009288 D-xylulose kinase; Region: XylB; TIGR01312 1005048009289 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1005048009290 N- and C-terminal domain interface [polypeptide binding]; other site 1005048009291 active site 1005048009292 MgATP binding site [chemical binding]; other site 1005048009293 catalytic site [active] 1005048009294 metal binding site [ion binding]; metal-binding site 1005048009295 xylulose binding site [chemical binding]; other site 1005048009296 homodimer interface [polypeptide binding]; other site 1005048009297 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048009298 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048009299 DNA binding site [nucleotide binding] 1005048009300 domain linker motif; other site 1005048009301 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1005048009302 dimerization interface [polypeptide binding]; other site 1005048009303 ligand binding site [chemical binding]; other site 1005048009304 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048009305 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 1005048009306 putative ligand binding site [chemical binding]; other site 1005048009307 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048009308 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048009309 Walker A/P-loop; other site 1005048009310 ATP binding site [chemical binding]; other site 1005048009311 Q-loop/lid; other site 1005048009312 ABC transporter signature motif; other site 1005048009313 Walker B; other site 1005048009314 D-loop; other site 1005048009315 H-loop/switch region; other site 1005048009316 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048009317 peptidase PmbA; Provisional; Region: PRK11040 1005048009318 hypothetical protein; Provisional; Region: PRK05255 1005048009319 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 1005048009320 MPT binding site; other site 1005048009321 trimer interface [polypeptide binding]; other site 1005048009322 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1005048009323 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1005048009324 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 1005048009325 metal-binding site [ion binding] 1005048009326 Amino acid synthesis; Region: AA_synth; pfam06684 1005048009327 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 1005048009328 metal-binding site [ion binding] 1005048009329 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1005048009330 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 1005048009331 metal-binding site [ion binding] 1005048009332 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005048009333 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1005048009334 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1005048009335 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1005048009336 DNA binding residues [nucleotide binding] 1005048009337 dimer interface [polypeptide binding]; other site 1005048009338 copper binding site [ion binding]; other site 1005048009339 Outer membrane efflux protein; Region: OEP; pfam02321 1005048009340 Outer membrane efflux protein; Region: OEP; pfam02321 1005048009341 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1005048009342 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1005048009343 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1005048009344 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1005048009345 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1005048009346 N-acetylglutamate synthase; Validated; Region: PRK05279 1005048009347 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 1005048009348 putative feedback inhibition sensing region; other site 1005048009349 putative nucleotide binding site [chemical binding]; other site 1005048009350 putative substrate binding site [chemical binding]; other site 1005048009351 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048009352 Coenzyme A binding pocket [chemical binding]; other site 1005048009353 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1005048009354 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1005048009355 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1005048009356 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1005048009357 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1005048009358 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1005048009359 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1005048009360 amino acid transporter; Region: 2A0306; TIGR00909 1005048009361 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 1005048009362 aromatic chitin/cellulose binding site residues [chemical binding]; other site 1005048009363 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 1005048009364 active site 1005048009365 Glyco_18 domain; Region: Glyco_18; smart00636 1005048009366 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 1005048009367 active site 1005048009368 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 1005048009369 active site 1005048009370 catalytic residues [active] 1005048009371 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1005048009372 muropeptide transporter; Validated; Region: ampG; cl17669 1005048009373 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1005048009374 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1005048009375 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1005048009376 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 1005048009377 dimer interface [polypeptide binding]; other site 1005048009378 active site 1005048009379 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 1005048009380 dimer interface [polypeptide binding]; other site 1005048009381 active site 1005048009382 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 1005048009383 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1005048009384 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 1005048009385 active site 1005048009386 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1005048009387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048009388 DNA-binding site [nucleotide binding]; DNA binding site 1005048009389 UTRA domain; Region: UTRA; pfam07702 1005048009390 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1005048009391 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048009392 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048009393 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048009394 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048009395 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1005048009396 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1005048009397 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005048009398 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1005048009399 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 1005048009400 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 1005048009401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048009402 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048009403 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1005048009404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048009405 NAD(P) binding site [chemical binding]; other site 1005048009406 active site 1005048009407 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 1005048009408 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1005048009409 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048009410 potential catalytic triad [active] 1005048009411 conserved cys residue [active] 1005048009412 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; cl00217 1005048009413 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1005048009414 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048009415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048009416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048009417 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1005048009418 putative effector binding pocket; other site 1005048009419 putative dimerization interface [polypeptide binding]; other site 1005048009420 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1005048009421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048009422 NAD(P) binding site [chemical binding]; other site 1005048009423 active site 1005048009424 Predicted transcriptional regulator [Transcription]; Region: COG2378 1005048009425 HTH domain; Region: HTH_11; pfam08279 1005048009426 WYL domain; Region: WYL; pfam13280 1005048009427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048009428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048009429 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 1005048009430 putative effector binding pocket; other site 1005048009431 dimerization interface [polypeptide binding]; other site 1005048009432 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1005048009433 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1005048009434 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1005048009435 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1005048009436 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048009437 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1005048009438 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 1005048009439 Recombinase; Region: Recombinase; pfam07508 1005048009440 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1005048009441 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 1005048009442 nudix motif; other site 1005048009443 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1005048009444 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1005048009445 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1005048009446 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1005048009447 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1005048009448 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 1005048009449 quinone interaction residues [chemical binding]; other site 1005048009450 active site 1005048009451 catalytic residues [active] 1005048009452 FMN binding site [chemical binding]; other site 1005048009453 substrate binding site [chemical binding]; other site 1005048009454 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1005048009455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048009456 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1005048009457 substrate binding site [chemical binding]; other site 1005048009458 dimerization interface [polypeptide binding]; other site 1005048009459 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1005048009460 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1005048009461 Walker A/P-loop; other site 1005048009462 ATP binding site [chemical binding]; other site 1005048009463 Q-loop/lid; other site 1005048009464 ABC transporter signature motif; other site 1005048009465 Walker B; other site 1005048009466 D-loop; other site 1005048009467 H-loop/switch region; other site 1005048009468 TOBE-like domain; Region: TOBE_3; pfam12857 1005048009469 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 1005048009470 dimer interface [polypeptide binding]; other site 1005048009471 conserved gate region; other site 1005048009472 putative PBP binding loops; other site 1005048009473 ABC-ATPase subunit interface; other site 1005048009474 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1005048009475 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 1005048009476 dimer interface [polypeptide binding]; other site 1005048009477 conserved gate region; other site 1005048009478 putative PBP binding loops; other site 1005048009479 ABC-ATPase subunit interface; other site 1005048009480 Histidine kinase; Region: His_kinase; pfam06580 1005048009481 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 1005048009482 ATP binding site [chemical binding]; other site 1005048009483 Mg2+ binding site [ion binding]; other site 1005048009484 G-X-G motif; other site 1005048009485 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 1005048009486 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1005048009487 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 1005048009488 active site 1005048009489 phosphorylation site [posttranslational modification] 1005048009490 intermolecular recognition site; other site 1005048009491 dimerization interface [polypeptide binding]; other site 1005048009492 LytTr DNA-binding domain; Region: LytTR; pfam04397 1005048009493 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1005048009494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048009495 DNA-binding site [nucleotide binding]; DNA binding site 1005048009496 FCD domain; Region: FCD; pfam07729 1005048009497 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1005048009498 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1005048009499 allantoate amidohydrolase; Reviewed; Region: PRK12890 1005048009500 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1005048009501 active site 1005048009502 metal binding site [ion binding]; metal-binding site 1005048009503 dimer interface [polypeptide binding]; other site 1005048009504 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1005048009505 active sites [active] 1005048009506 tetramer interface [polypeptide binding]; other site 1005048009507 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1005048009508 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048009509 EAL domain; Region: EAL; pfam00563 1005048009510 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1005048009511 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1005048009512 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048009513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048009514 Walker A/P-loop; other site 1005048009515 ATP binding site [chemical binding]; other site 1005048009516 Q-loop/lid; other site 1005048009517 ABC transporter signature motif; other site 1005048009518 Walker B; other site 1005048009519 D-loop; other site 1005048009520 H-loop/switch region; other site 1005048009521 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048009522 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 1005048009523 putative PBP binding loops; other site 1005048009524 dimer interface [polypeptide binding]; other site 1005048009525 ABC-ATPase subunit interface; other site 1005048009526 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1005048009527 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1005048009528 active site 1005048009529 dimer interface [polypeptide binding]; other site 1005048009530 non-prolyl cis peptide bond; other site 1005048009531 insertion regions; other site 1005048009532 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1005048009533 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 1005048009534 substrate binding pocket [chemical binding]; other site 1005048009535 membrane-bound complex binding site; other site 1005048009536 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1005048009537 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 1005048009538 substrate binding pocket [chemical binding]; other site 1005048009539 membrane-bound complex binding site; other site 1005048009540 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1005048009541 hinge residues; other site 1005048009542 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048009543 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 1005048009544 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1005048009545 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048009546 Electron transfer DM13; Region: DM13; pfam10517 1005048009547 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1005048009548 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1005048009549 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1005048009550 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1005048009551 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005048009552 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1005048009553 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005048009554 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1005048009555 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1005048009556 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048009557 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 1005048009558 S-adenosylmethionine binding site [chemical binding]; other site 1005048009559 Helix-turn-helix domain; Region: HTH_31; pfam13560 1005048009560 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1005048009561 EamA-like transporter family; Region: EamA; pfam00892 1005048009562 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1005048009563 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1005048009564 putative active site [active] 1005048009565 Zn binding site [ion binding]; other site 1005048009566 Phasin protein; Region: Phasin_2; pfam09361 1005048009567 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1005048009568 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1005048009569 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1005048009570 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1005048009571 putative MPT binding site; other site 1005048009572 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1005048009573 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1005048009574 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1005048009575 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1005048009576 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1005048009577 NodB motif; other site 1005048009578 active site 1005048009579 catalytic site [active] 1005048009580 metal binding site [ion binding]; metal-binding site 1005048009581 PQQ-like domain; Region: PQQ_2; pfam13360 1005048009582 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1005048009583 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1005048009584 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1005048009585 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1005048009586 Acyl CoA binding protein; Region: ACBP; pfam00887 1005048009587 acyl-CoA binding pocket [chemical binding]; other site 1005048009588 CoA binding site [chemical binding]; other site 1005048009589 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1005048009590 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1005048009591 dimerization interface [polypeptide binding]; other site 1005048009592 ligand binding site [chemical binding]; other site 1005048009593 NADP binding site [chemical binding]; other site 1005048009594 catalytic site [active] 1005048009595 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1005048009596 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 1005048009597 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1005048009598 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1005048009599 active site 1005048009600 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1005048009601 Cation efflux family; Region: Cation_efflux; pfam01545 1005048009602 Ferredoxin [Energy production and conversion]; Region: COG1146 1005048009603 4Fe-4S binding domain; Region: Fer4; pfam00037 1005048009604 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1005048009605 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1005048009606 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048009607 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1005048009608 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1005048009609 RNase E interface [polypeptide binding]; other site 1005048009610 trimer interface [polypeptide binding]; other site 1005048009611 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1005048009612 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1005048009613 RNase E interface [polypeptide binding]; other site 1005048009614 trimer interface [polypeptide binding]; other site 1005048009615 active site 1005048009616 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 1005048009617 putative nucleic acid binding region [nucleotide binding]; other site 1005048009618 G-X-X-G motif; other site 1005048009619 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 1005048009620 RNA binding site [nucleotide binding]; other site 1005048009621 domain interface; other site 1005048009622 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 1005048009623 16S/18S rRNA binding site [nucleotide binding]; other site 1005048009624 S13e-L30e interaction site [polypeptide binding]; other site 1005048009625 25S rRNA binding site [nucleotide binding]; other site 1005048009626 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1005048009627 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1005048009628 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1005048009629 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005048009630 Walker A/P-loop; other site 1005048009631 ATP binding site [chemical binding]; other site 1005048009632 Q-loop/lid; other site 1005048009633 ABC transporter signature motif; other site 1005048009634 Walker B; other site 1005048009635 D-loop; other site 1005048009636 H-loop/switch region; other site 1005048009637 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1005048009638 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1005048009639 FtsX-like permease family; Region: FtsX; pfam02687 1005048009640 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 1005048009641 catalytic residues [active] 1005048009642 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1005048009643 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1005048009644 NAD binding site [chemical binding]; other site 1005048009645 homodimer interface [polypeptide binding]; other site 1005048009646 homotetramer interface [polypeptide binding]; other site 1005048009647 active site 1005048009648 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1005048009649 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1005048009650 active site 1005048009651 acyl-activating enzyme (AAE) consensus motif; other site 1005048009652 putative CoA binding site [chemical binding]; other site 1005048009653 AMP binding site [chemical binding]; other site 1005048009654 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1005048009655 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048009656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048009657 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1005048009658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048009659 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 1005048009660 dimerization interface [polypeptide binding]; other site 1005048009661 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; cl00250 1005048009662 30S subunit binding site; other site 1005048009663 YccA-like proteins; Region: YccA_like; cd10433 1005048009664 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1005048009665 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 1005048009666 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1005048009667 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1005048009668 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1005048009669 putative NAD(P) binding site [chemical binding]; other site 1005048009670 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1005048009671 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 1005048009672 active site 1005048009673 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1005048009674 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1005048009675 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1005048009676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1005048009677 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1005048009678 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1005048009679 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1005048009680 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1005048009681 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1005048009682 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1005048009683 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1005048009684 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1005048009685 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1005048009686 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1005048009687 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 1005048009688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048009689 catalytic residue [active] 1005048009690 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1005048009691 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1005048009692 NAD binding site [chemical binding]; other site 1005048009693 catalytic Zn binding site [ion binding]; other site 1005048009694 structural Zn binding site [ion binding]; other site 1005048009695 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1005048009696 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1005048009697 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1005048009698 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1005048009699 conserved cys residue [active] 1005048009700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048009701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048009702 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 1005048009703 dimer interface [polypeptide binding]; other site 1005048009704 conserved gate region; other site 1005048009705 putative PBP binding loops; other site 1005048009706 ABC-ATPase subunit interface; other site 1005048009707 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1005048009708 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1005048009709 Walker A/P-loop; other site 1005048009710 ATP binding site [chemical binding]; other site 1005048009711 Q-loop/lid; other site 1005048009712 ABC transporter signature motif; other site 1005048009713 Walker B; other site 1005048009714 D-loop; other site 1005048009715 H-loop/switch region; other site 1005048009716 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 1005048009717 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 1005048009718 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1005048009719 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 1005048009720 active site 1005048009721 phosphorylation site [posttranslational modification] 1005048009722 intermolecular recognition site; other site 1005048009723 dimerization interface [polypeptide binding]; other site 1005048009724 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 1005048009725 DNA binding site [nucleotide binding] 1005048009726 sensor protein QseC; Provisional; Region: PRK10337 1005048009727 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 1005048009728 dimer interface [polypeptide binding]; other site 1005048009729 phosphorylation site [posttranslational modification] 1005048009730 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 1005048009731 ATP binding site [chemical binding]; other site 1005048009732 Mg2+ binding site [ion binding]; other site 1005048009733 G-X-G motif; other site 1005048009734 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1005048009735 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048009736 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048009737 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048009738 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1005048009739 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1005048009740 Walker A/P-loop; other site 1005048009741 ATP binding site [chemical binding]; other site 1005048009742 Q-loop/lid; other site 1005048009743 ABC transporter signature motif; other site 1005048009744 Walker B; other site 1005048009745 D-loop; other site 1005048009746 H-loop/switch region; other site 1005048009747 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1005048009748 FtsX-like permease family; Region: FtsX; pfam02687 1005048009749 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048009750 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1005048009751 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1005048009752 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1005048009753 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_1; cd06215 1005048009754 FAD binding pocket [chemical binding]; other site 1005048009755 FAD binding motif [chemical binding]; other site 1005048009756 phosphate binding motif [ion binding]; other site 1005048009757 beta-alpha-beta structure motif; other site 1005048009758 NAD binding pocket [chemical binding]; other site 1005048009759 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 1005048009760 catalytic loop [active] 1005048009761 iron binding site [ion binding]; other site 1005048009762 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1005048009763 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1005048009764 [2Fe-2S] cluster binding site [ion binding]; other site 1005048009765 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1005048009766 putative alpha subunit interface [polypeptide binding]; other site 1005048009767 putative active site [active] 1005048009768 putative substrate binding site [chemical binding]; other site 1005048009769 Fe binding site [ion binding]; other site 1005048009770 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 1005048009771 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1005048009772 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1005048009773 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1005048009774 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1005048009775 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1005048009776 Old yellow enzyme (OYE)-related FMN binding domain, group 3. 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_3_FMN; cd04734 1005048009777 putative active site [active] 1005048009778 putative FMN binding site [chemical binding]; other site 1005048009779 putative substrate binding site [chemical binding]; other site 1005048009780 putative catalytic residue [active] 1005048009781 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048009782 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 1005048009783 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1005048009784 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1005048009785 active site 1005048009786 dimer interface [polypeptide binding]; other site 1005048009787 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1005048009788 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 1005048009789 dimer interface [polypeptide binding]; other site 1005048009790 active site 1005048009791 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1005048009792 folate binding site [chemical binding]; other site 1005048009793 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1005048009794 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1005048009795 conserved cys residue [active] 1005048009796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048009797 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 1005048009798 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048009799 active site 1005048009800 catalytic tetrad [active] 1005048009801 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048009802 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 1005048009803 N-terminal plug; other site 1005048009804 ligand-binding site [chemical binding]; other site 1005048009805 PBP superfamily domain; Region: PBP_like_2; cl17296 1005048009806 PBP superfamily domain; Region: PBP_like_2; cl17296 1005048009807 DinB family; Region: DinB; cl17821 1005048009808 DinB superfamily; Region: DinB_2; pfam12867 1005048009809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1005048009810 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1005048009811 DHH family; Region: DHH; pfam01368 1005048009812 DHHA1 domain; Region: DHHA1; pfam02272 1005048009813 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1005048009814 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1005048009815 conserved cys residue [active] 1005048009816 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1005048009817 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1005048009818 conserved cys residue [active] 1005048009819 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 1005048009820 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 1005048009821 non-specific DNA binding site [nucleotide binding]; other site 1005048009822 salt bridge; other site 1005048009823 sequence-specific DNA binding site [nucleotide binding]; other site 1005048009824 peptide chain release factor 2; Provisional; Region: PRK08787 1005048009825 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1005048009826 RF-1 domain; Region: RF-1; pfam00472 1005048009827 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1005048009828 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 1005048009829 dimer interface [polypeptide binding]; other site 1005048009830 putative anticodon binding site; other site 1005048009831 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 1005048009832 motif 1; other site 1005048009833 active site 1005048009834 motif 2; other site 1005048009835 motif 3; other site 1005048009836 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1005048009837 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 1005048009838 catalytic loop [active] 1005048009839 iron binding site [ion binding]; other site 1005048009840 potential frameshift: common BLAST hit: gi|300312439|ref|YP_003776531.1| molecular chaperone protein 1005048009841 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1005048009842 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005048009843 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005048009844 nucleotide binding site [chemical binding]; other site 1005048009845 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048009846 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1005048009847 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 1005048009848 HSP70 interaction site [polypeptide binding]; other site 1005048009849 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1005048009850 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1005048009851 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1005048009852 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1005048009853 trimerization site [polypeptide binding]; other site 1005048009854 active site 1005048009855 cysteine desulfurase; Provisional; Region: PRK14012 1005048009856 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1005048009857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048009858 catalytic residue [active] 1005048009859 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1005048009860 Rrf2 family protein; Region: rrf2_super; TIGR00738 1005048009861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048009862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048009863 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1005048009864 ligand binding site [chemical binding]; other site 1005048009865 active site 1005048009866 excinuclease ABC subunit B; Provisional; Region: PRK05298 1005048009867 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 1005048009868 ATP binding site [chemical binding]; other site 1005048009869 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 1005048009870 nucleotide binding region [chemical binding]; other site 1005048009871 ATP-binding site [chemical binding]; other site 1005048009872 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1005048009873 UvrB/uvrC motif; Region: UVR; pfam02151 1005048009874 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1005048009875 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 1005048009876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048009877 homodimer interface [polypeptide binding]; other site 1005048009878 catalytic residue [active] 1005048009879 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1005048009880 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1005048009881 RibD C-terminal domain; Region: RibD_C; cl17279 1005048009882 RDD family; Region: RDD; pfam06271 1005048009883 H+ Antiporter protein; Region: 2A0121; TIGR00900 1005048009884 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 1005048009885 putative substrate translocation pore; other site 1005048009886 Isochorismatase family; Region: Isochorismatase; pfam00857 1005048009887 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1005048009888 catalytic triad [active] 1005048009889 conserved cis-peptide bond; other site 1005048009890 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1005048009891 MarR family; Region: MarR_2; pfam12802 1005048009892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048009893 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1005048009894 putative dimerization interface [polypeptide binding]; other site 1005048009895 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1005048009896 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048009897 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 1005048009898 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048009899 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048009900 TM-ABC transporter signature motif; other site 1005048009901 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1005048009902 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048009903 Walker A/P-loop; other site 1005048009904 ATP binding site [chemical binding]; other site 1005048009905 Q-loop/lid; other site 1005048009906 ABC transporter signature motif; other site 1005048009907 Walker B; other site 1005048009908 D-loop; other site 1005048009909 H-loop/switch region; other site 1005048009910 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048009911 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1005048009912 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1005048009913 putative ligand binding site [chemical binding]; other site 1005048009914 xylose isomerase; Provisional; Region: PRK05474 1005048009915 xylose isomerase; Region: xylose_isom_A; TIGR02630 1005048009916 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1005048009917 putative dimerization interface [polypeptide binding]; other site 1005048009918 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1005048009919 putative ligand binding site [chemical binding]; other site 1005048009920 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1005048009921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048009922 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1005048009923 active site 1005048009924 catalytic residues [active] 1005048009925 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 1005048009926 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1005048009927 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048009928 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1005048009929 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 1005048009930 putative active site [active] 1005048009931 putative metal binding site [ion binding]; other site 1005048009932 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1005048009933 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1005048009934 putative NAD(P) binding site [chemical binding]; other site 1005048009935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048009936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048009937 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 1005048009938 putative effector binding pocket; other site 1005048009939 putative dimerization interface [polypeptide binding]; other site 1005048009940 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1005048009941 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1005048009942 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1005048009943 aspartate racemase; Region: asp_race; TIGR00035 1005048009944 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005048009945 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; cl00047 1005048009946 ligand binding site [chemical binding]; other site 1005048009947 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1005048009948 CHASE3 domain; Region: CHASE3; pfam05227 1005048009949 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048009950 Histidine kinase; Region: HisKA_3; pfam07730 1005048009951 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 1005048009952 ATP binding site [chemical binding]; other site 1005048009953 Mg2+ binding site [ion binding]; other site 1005048009954 G-X-G motif; other site 1005048009955 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1005048009956 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1005048009957 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1005048009958 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048009959 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048009960 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048009961 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048009962 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1005048009963 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048009964 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 1005048009965 N-terminal plug; other site 1005048009966 ligand-binding site [chemical binding]; other site 1005048009967 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_18; cd08505 1005048009968 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1005048009969 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_18; cd08505 1005048009970 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1005048009971 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_18; cd08505 1005048009972 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1005048009973 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1005048009974 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 1005048009975 active site 1005048009976 Zn binding site [ion binding]; other site 1005048009977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1005048009978 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 1005048009979 dimer interface [polypeptide binding]; other site 1005048009980 conserved gate region; other site 1005048009981 putative PBP binding loops; other site 1005048009982 ABC-ATPase subunit interface; other site 1005048009983 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1005048009984 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 1005048009985 dimer interface [polypeptide binding]; other site 1005048009986 conserved gate region; other site 1005048009987 putative PBP binding loops; other site 1005048009988 ABC-ATPase subunit interface; other site 1005048009989 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1005048009990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048009991 Walker A/P-loop; other site 1005048009992 ATP binding site [chemical binding]; other site 1005048009993 Q-loop/lid; other site 1005048009994 ABC transporter signature motif; other site 1005048009995 Walker B; other site 1005048009996 D-loop; other site 1005048009997 H-loop/switch region; other site 1005048009998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005048009999 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048010000 Walker A/P-loop; other site 1005048010001 ATP binding site [chemical binding]; other site 1005048010002 Q-loop/lid; other site 1005048010003 ABC transporter signature motif; other site 1005048010004 Walker B; other site 1005048010005 D-loop; other site 1005048010006 H-loop/switch region; other site 1005048010007 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1005048010008 UPF0126 domain; Region: UPF0126; pfam03458 1005048010009 Predicted membrane protein [Function unknown]; Region: COG2860 1005048010010 UPF0126 domain; Region: UPF0126; pfam03458 1005048010011 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048010012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048010013 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1005048010014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010015 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 1005048010016 dimerization interface [polypeptide binding]; other site 1005048010017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048010018 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 1005048010019 putative substrate translocation pore; other site 1005048010020 Cupin-like domain; Region: Cupin_8; pfam13621 1005048010021 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1005048010022 active site 1 [active] 1005048010023 dimer interface [polypeptide binding]; other site 1005048010024 hexamer interface [polypeptide binding]; other site 1005048010025 active site 2 [active] 1005048010026 LysR family transcriptional regulator; Provisional; Region: PRK14997 1005048010027 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 1005048010028 putative effector binding pocket; other site 1005048010029 putative dimerization interface [polypeptide binding]; other site 1005048010030 NIPSNAP; Region: NIPSNAP; pfam07978 1005048010031 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1005048010032 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1005048010033 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 1005048010034 ArsC family; Region: ArsC; pfam03960 1005048010035 catalytic residues [active] 1005048010036 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 1005048010037 putative substrate translocation pore; other site 1005048010038 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1005048010039 arsenical-resistance protein; Region: acr3; TIGR00832 1005048010040 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1005048010041 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1005048010042 active site 1005048010043 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_20; cd07254 1005048010044 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048010045 putative metal binding site [ion binding]; other site 1005048010046 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 1005048010047 dimerization interface [polypeptide binding]; other site 1005048010048 putative DNA binding site [nucleotide binding]; other site 1005048010049 putative Zn2+ binding site [ion binding]; other site 1005048010050 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1005048010051 putative hydrophobic ligand binding site [chemical binding]; other site 1005048010052 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048010053 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1005048010054 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048010055 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1005048010056 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1005048010057 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1005048010058 catalytic triad [active] 1005048010059 putative active site [active] 1005048010060 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1005048010061 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048010062 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048010063 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1005048010064 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1005048010065 catalytic residues [active] 1005048010066 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1005048010067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048010068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010069 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 1005048010070 putative effector binding pocket; other site 1005048010071 dimerization interface [polypeptide binding]; other site 1005048010072 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1005048010073 GTP cyclohydrolase I; Provisional; Region: PLN03044 1005048010074 active site 1005048010075 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1005048010076 conserved cys residue [active] 1005048010077 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1005048010078 multidrug efflux system protein; Provisional; Region: PRK11431 1005048010079 hypothetical protein; Provisional; Region: PRK02237 1005048010080 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1005048010081 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1005048010082 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1005048010083 Purine nucleoside permease (NUP); Region: NUP; pfam06516 1005048010084 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1005048010085 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1005048010086 fumarylacetoacetase; Region: PLN02856 1005048010087 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1005048010088 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048010089 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1005048010090 benzoate transport; Region: 2A0115; TIGR00895 1005048010091 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 1005048010092 putative substrate translocation pore; other site 1005048010093 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 1005048010094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048010095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010096 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 1005048010097 putative effector binding pocket; other site 1005048010098 dimerization interface [polypeptide binding]; other site 1005048010099 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1005048010100 serine/threonine protein kinase; Provisional; Region: PRK11768 1005048010101 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1005048010102 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_9; cd07245 1005048010103 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048010104 dimer interface [polypeptide binding]; other site 1005048010105 putative metal binding site [ion binding]; other site 1005048010106 DNA ligase; Provisional; Region: PRK09125 1005048010107 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1005048010108 DNA binding site [nucleotide binding] 1005048010109 active site 1005048010110 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 1005048010111 DNA binding site [nucleotide binding] 1005048010112 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1005048010113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048010114 Coenzyme A binding pocket [chemical binding]; other site 1005048010115 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1005048010116 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1005048010117 catalytic site [active] 1005048010118 putative active site [active] 1005048010119 putative substrate binding site [chemical binding]; other site 1005048010120 dimer interface [polypeptide binding]; other site 1005048010121 Peptidase family M48; Region: Peptidase_M48; pfam01435 1005048010122 GTPase RsgA; Reviewed; Region: PRK00098 1005048010123 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 1005048010124 RNA binding site [nucleotide binding]; other site 1005048010125 homodimer interface [polypeptide binding]; other site 1005048010126 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1005048010127 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1005048010128 GTP/Mg2+ binding site [chemical binding]; other site 1005048010129 G4 box; other site 1005048010130 G5 box; other site 1005048010131 G1 box; other site 1005048010132 Switch I region; other site 1005048010133 G2 box; other site 1005048010134 G3 box; other site 1005048010135 Switch II region; other site 1005048010136 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1005048010137 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1005048010138 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1005048010139 argininosuccinate synthase; Validated; Region: PRK05370 1005048010140 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1005048010141 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1005048010142 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048010143 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1005048010144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1005048010145 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1005048010146 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1005048010147 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1005048010148 catalytic motif [active] 1005048010149 Catalytic residue [active] 1005048010150 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1005048010151 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1005048010152 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 1005048010153 non-specific DNA binding site [nucleotide binding]; other site 1005048010154 salt bridge; other site 1005048010155 sequence-specific DNA binding site [nucleotide binding]; other site 1005048010156 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1005048010157 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005048010158 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 1005048010159 putative substrate translocation pore; other site 1005048010160 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1005048010161 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 1005048010162 DNA binding site [nucleotide binding] 1005048010163 active site 1005048010164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 1005048010165 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1005048010166 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005048010167 endonuclease III; Region: ENDO3c; smart00478 1005048010168 minor groove reading motif; other site 1005048010169 helix-hairpin-helix signature motif; other site 1005048010170 substrate binding pocket [chemical binding]; other site 1005048010171 active site 1005048010172 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1005048010173 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1005048010174 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048010175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048010176 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1005048010177 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 1005048010178 DNA binding site [nucleotide binding] 1005048010179 active site 1005048010180 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1005048010181 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1005048010182 Cupin-like domain; Region: Cupin_8; pfam13621 1005048010183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048010184 Coenzyme A binding pocket [chemical binding]; other site 1005048010185 protease TldD; Provisional; Region: tldD; PRK10735 1005048010186 nitrilase; Region: PLN02798 1005048010187 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1005048010188 putative active site [active] 1005048010189 catalytic triad [active] 1005048010190 dimer interface [polypeptide binding]; other site 1005048010191 TIGR02099 family protein; Region: TIGR02099 1005048010192 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1005048010193 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1005048010194 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1005048010195 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005048010196 metal binding triad; other site 1005048010197 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1005048010198 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1005048010199 metal binding triad; other site 1005048010200 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1005048010201 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1005048010202 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1005048010203 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1005048010204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048010205 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048010206 Coenzyme A binding pocket [chemical binding]; other site 1005048010207 transketolase; Reviewed; Region: PRK12753 1005048010208 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 1005048010209 TPP-binding site [chemical binding]; other site 1005048010210 dimer interface [polypeptide binding]; other site 1005048010211 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 1005048010212 PYR/PP interface [polypeptide binding]; other site 1005048010213 dimer interface [polypeptide binding]; other site 1005048010214 TPP binding site [chemical binding]; other site 1005048010215 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1005048010216 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1005048010217 RNA methyltransferase, RsmE family; Region: TIGR00046 1005048010218 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1005048010219 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1005048010220 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1005048010221 active site 1005048010222 Riboflavin kinase; Region: Flavokinase; smart00904 1005048010223 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1005048010224 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048010225 active site 1005048010226 HIGH motif; other site 1005048010227 nucleotide binding site [chemical binding]; other site 1005048010228 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1005048010229 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1005048010230 active site 1005048010231 KMSKS motif; other site 1005048010232 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1005048010233 tRNA binding surface [nucleotide binding]; other site 1005048010234 anticodon binding site; other site 1005048010235 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1005048010236 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1005048010237 lipoprotein signal peptidase; Provisional; Region: PRK14787 1005048010238 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1005048010239 Flavoprotein; Region: Flavoprotein; pfam02441 1005048010240 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1005048010241 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1005048010242 trimer interface [polypeptide binding]; other site 1005048010243 active site 1005048010244 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 1005048010245 Peptidase family M48; Region: Peptidase_M48; cl12018 1005048010246 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1005048010247 Clp amino terminal domain; Region: Clp_N; pfam02861 1005048010248 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 1005048010249 Walker A motif; other site 1005048010250 ATP binding site [chemical binding]; other site 1005048010251 Walker B motif; other site 1005048010252 arginine finger; other site 1005048010253 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 1005048010254 Walker A motif; other site 1005048010255 ATP binding site [chemical binding]; other site 1005048010256 Walker B motif; other site 1005048010257 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005048010258 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1005048010259 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 1005048010260 DNA-binding site [nucleotide binding]; DNA binding site 1005048010261 RNA-binding motif; other site 1005048010262 isocitrate dehydrogenase; Validated; Region: PRK07362 1005048010263 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1005048010264 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1005048010265 pseudouridine synthase; Region: TIGR00093 1005048010266 active site 1005048010267 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1005048010268 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1005048010269 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1005048010270 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1005048010271 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1005048010272 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1005048010273 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1005048010274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048010275 ABC transporter ATPase component; Reviewed; Region: PRK11147 1005048010276 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048010277 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048010278 ABC transporter; Region: ABC_tran_2; pfam12848 1005048010279 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048010280 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1005048010281 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1005048010282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048010283 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048010284 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1005048010285 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 1005048010286 putative substrate translocation pore; other site 1005048010287 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1005048010288 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1005048010289 NADP binding site [chemical binding]; other site 1005048010290 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005048010291 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1005048010292 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048010293 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_14; cd08355 1005048010294 short chain dehydrogenase; Provisional; Region: PRK06181 1005048010295 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 1005048010296 putative NAD(P) binding site [chemical binding]; other site 1005048010297 homotetramer interface [polypeptide binding]; other site 1005048010298 active site 1005048010299 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1005048010300 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 1005048010301 N-terminal plug; other site 1005048010302 ligand-binding site [chemical binding]; other site 1005048010303 Hemerythrin-like domain; Region: Hr-like; cd12108 1005048010304 Fe binding site [ion binding]; other site 1005048010305 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 1005048010306 dimerization interface [polypeptide binding]; other site 1005048010307 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048010308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048010309 metal binding site [ion binding]; metal-binding site 1005048010310 active site 1005048010311 I-site; other site 1005048010312 psiF repeat; Region: PsiF_repeat; pfam07769 1005048010313 psiF repeat; Region: PsiF_repeat; pfam07769 1005048010314 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 1005048010315 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1005048010316 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1005048010317 Protein of unknown function (DUF962); Region: DUF962; pfam06127 1005048010318 Cupin-like domain; Region: Cupin_8; pfam13621 1005048010319 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1005048010320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010321 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 1005048010322 substrate binding pocket [chemical binding]; other site 1005048010323 dimerization interface [polypeptide binding]; other site 1005048010324 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1005048010325 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1005048010326 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1005048010327 hydrophobic ligand binding site; other site 1005048010328 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1005048010329 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 1005048010330 Glycoside hydrolase families 71, 99, and related domains; Region: GH99_GH71_like; cl01529 1005048010331 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1005048010332 Glycosyltransferase WbsX; Region: Glyco_tran_WbsX; pfam14307 1005048010333 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1005048010334 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1005048010335 active site 1005048010336 substrate binding site [chemical binding]; other site 1005048010337 cosubstrate binding site; other site 1005048010338 catalytic site [active] 1005048010339 Carboxy-terminal domain of Formyltransferase and similar domains; Region: FMT_C_like; cl14785 1005048010340 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1005048010341 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 1005048010342 inhibitor-cofactor binding pocket; inhibition site 1005048010343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048010344 catalytic residue [active] 1005048010345 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048010346 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048010347 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1005048010348 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1005048010349 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 1005048010350 active site 1005048010351 catalytic triad [active] 1005048010352 oxyanion hole [active] 1005048010353 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048010354 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 1005048010355 active site 1005048010356 phosphorylation site [posttranslational modification] 1005048010357 intermolecular recognition site; other site 1005048010358 dimerization interface [polypeptide binding]; other site 1005048010359 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 1005048010360 DNA binding site [nucleotide binding] 1005048010361 sensor protein QseC; Provisional; Region: PRK10337 1005048010362 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 1005048010363 dimer interface [polypeptide binding]; other site 1005048010364 phosphorylation site [posttranslational modification] 1005048010365 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 1005048010366 ATP binding site [chemical binding]; other site 1005048010367 Mg2+ binding site [ion binding]; other site 1005048010368 G-X-G motif; other site 1005048010369 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1005048010370 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1005048010371 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1005048010372 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 1005048010373 protein binding site [polypeptide binding]; other site 1005048010374 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 1005048010375 protein binding site [polypeptide binding]; other site 1005048010376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1005048010377 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1005048010378 putative hydrophobic ligand binding site [chemical binding]; other site 1005048010379 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1005048010380 dimer interface [polypeptide binding]; other site 1005048010381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048010382 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048010383 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1005048010384 putative DNA binding site [nucleotide binding]; other site 1005048010385 putative Zn2+ binding site [ion binding]; other site 1005048010386 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048010387 Putative cyclase; Region: Cyclase; cl00814 1005048010388 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1005048010389 kynureninase; Region: kynureninase; TIGR01814 1005048010390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048010391 catalytic residue [active] 1005048010392 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1005048010393 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 1005048010394 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1005048010395 active site 1005048010396 substrate binding site [chemical binding]; other site 1005048010397 Mg2+ binding site [ion binding]; other site 1005048010398 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1005048010399 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1005048010400 conserved cys residue [active] 1005048010401 Isochorismatase family; Region: Isochorismatase; pfam00857 1005048010402 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1005048010403 catalytic triad [active] 1005048010404 conserved cis-peptide bond; other site 1005048010405 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1005048010406 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 1005048010407 Catalytic site [active] 1005048010408 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 1005048010409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048010410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010411 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1005048010412 putative dimerization interface [polypeptide binding]; other site 1005048010413 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1005048010414 Citrate transporter; Region: CitMHS; pfam03600 1005048010415 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1005048010416 hypothetical protein; Provisional; Region: PRK09133 1005048010417 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1005048010418 putative metal binding site [ion binding]; other site 1005048010419 EamA-like transporter family; Region: EamA; pfam00892 1005048010420 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005048010421 EamA-like transporter family; Region: EamA; pfam00892 1005048010422 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1005048010423 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 1005048010424 salt bridge; other site 1005048010425 non-specific DNA binding site [nucleotide binding]; other site 1005048010426 sequence-specific DNA binding site [nucleotide binding]; other site 1005048010427 hypothetical protein; Provisional; Region: PRK11770 1005048010428 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1005048010429 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1005048010430 potential frameshift: common BLAST hit: gi|300312242|ref|YP_003776334.1| penicillin-binding 2 protein 1005048010431 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1005048010432 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1005048010433 Transglycosylase; Region: Transgly; pfam00912 1005048010434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1005048010435 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1005048010436 MG2 domain; Region: A2M_N; pfam01835 1005048010437 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1005048010438 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1005048010439 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 1005048010440 dimer interface [polypeptide binding]; other site 1005048010441 phosphorylation site [posttranslational modification] 1005048010442 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 1005048010443 ATP binding site [chemical binding]; other site 1005048010444 Mg2+ binding site [ion binding]; other site 1005048010445 G-X-G motif; other site 1005048010446 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1005048010447 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 1005048010448 active site 1005048010449 phosphorylation site [posttranslational modification] 1005048010450 intermolecular recognition site; other site 1005048010451 dimerization interface [polypeptide binding]; other site 1005048010452 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 1005048010453 DNA binding site [nucleotide binding] 1005048010454 MltA-interacting protein MipA; Region: MipA; cl01504 1005048010455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048010456 NAD(P) binding site [chemical binding]; other site 1005048010457 active site 1005048010458 acetyl-CoA synthetase; Provisional; Region: PRK00174 1005048010459 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1005048010460 active site 1005048010461 CoA binding site [chemical binding]; other site 1005048010462 acyl-activating enzyme (AAE) consensus motif; other site 1005048010463 AMP binding site [chemical binding]; other site 1005048010464 acetate binding site [chemical binding]; other site 1005048010465 EamA-like transporter family; Region: EamA; pfam00892 1005048010466 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1005048010467 EamA-like transporter family; Region: EamA; pfam00892 1005048010468 hypothetical protein; Provisional; Region: PRK05208 1005048010469 putative fumarate hydratase; Provisional; Region: PRK15392 1005048010470 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1005048010471 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1005048010472 glutamate racemase; Provisional; Region: PRK00865 1005048010473 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1005048010474 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1005048010475 active site 1005048010476 oxyanion hole [active] 1005048010477 catalytic triad [active] 1005048010478 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1005048010479 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1005048010480 oxyanion hole [active] 1005048010481 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1005048010482 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1005048010483 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1005048010484 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 1005048010485 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1005048010486 oligomerization interface [polypeptide binding]; other site 1005048010487 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1005048010488 Phage capsid family; Region: Phage_capsid; pfam05065 1005048010489 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 1005048010490 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1005048010491 Phage portal protein; Region: Phage_portal; pfam04860 1005048010492 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1005048010493 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1005048010494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1005048010495 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1005048010496 active site 1005048010497 metal binding site [ion binding]; metal-binding site 1005048010498 interdomain interaction site; other site 1005048010499 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1005048010500 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1005048010501 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1005048010502 putative active site [active] 1005048010503 putative NTP binding site [chemical binding]; other site 1005048010504 putative nucleic acid binding site [nucleotide binding]; other site 1005048010505 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1005048010506 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 1005048010507 cofactor binding site; other site 1005048010508 DNA binding site [nucleotide binding] 1005048010509 substrate interaction site [chemical binding]; other site 1005048010510 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 1005048010511 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 1005048010512 active site 1005048010513 DNA binding site [nucleotide binding] 1005048010514 Int/Topo IB signature motif; other site 1005048010515 LysE type translocator; Region: LysE; cl00565 1005048010516 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048010517 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 1005048010518 trimer interface [polypeptide binding]; other site 1005048010519 eyelet of channel; other site 1005048010520 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1005048010521 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 1005048010522 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 1005048010523 S-adenosylmethionine binding site [chemical binding]; other site 1005048010524 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048010525 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 1005048010526 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048010527 active site 1005048010528 catalytic tetrad [active] 1005048010529 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1005048010530 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 1005048010531 tetramer interface [polypeptide binding]; other site 1005048010532 active site 1005048010533 Mg2+/Mn2+ binding site [ion binding]; other site 1005048010534 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1005048010535 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 1005048010536 putative active site [active] 1005048010537 Zn binding site [ion binding]; other site 1005048010538 choline dehydrogenase; Validated; Region: PRK02106 1005048010539 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1005048010540 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1005048010541 Lumazine binding domain; Region: Lum_binding; pfam00677 1005048010542 Lumazine binding domain; Region: Lum_binding; pfam00677 1005048010543 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1005048010544 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 1005048010545 catalytic motif [active] 1005048010546 Zn binding site [ion binding]; other site 1005048010547 RibD C-terminal domain; Region: RibD_C; cl17279 1005048010548 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1005048010549 Type II transport protein GspH; Region: GspH; pfam12019 1005048010550 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1005048010551 ATP cone domain; Region: ATP-cone; pfam03477 1005048010552 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1005048010553 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 1005048010554 dimer interface [polypeptide binding]; other site 1005048010555 active site 1005048010556 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1005048010557 folate binding site [chemical binding]; other site 1005048010558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048010559 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 1005048010560 N-terminal plug; other site 1005048010561 ligand-binding site [chemical binding]; other site 1005048010562 malonic semialdehyde reductase; Provisional; Region: PRK10538 1005048010563 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1005048010564 putative NAD(P) binding site [chemical binding]; other site 1005048010565 homodimer interface [polypeptide binding]; other site 1005048010566 homotetramer interface [polypeptide binding]; other site 1005048010567 active site 1005048010568 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 1005048010569 active site 1005048010570 TolQ protein; Region: tolQ; TIGR02796 1005048010571 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048010572 TolR protein; Region: tolR; TIGR02801 1005048010573 TolA protein; Region: tolA_full; TIGR02794 1005048010574 TonB C terminal; Region: TonB_2; pfam13103 1005048010575 translocation protein TolB; Provisional; Region: tolB; PRK02889 1005048010576 TolB amino-terminal domain; Region: TolB_N; pfam04052 1005048010577 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005048010578 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005048010579 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005048010580 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1005048010581 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048010582 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005048010583 ligand binding site [chemical binding]; other site 1005048010584 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1005048010585 Pirin-related protein [General function prediction only]; Region: COG1741 1005048010586 Pirin; Region: Pirin; pfam02678 1005048010587 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1005048010588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010589 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 1005048010590 dimerization interface [polypeptide binding]; other site 1005048010591 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1005048010592 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1005048010593 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1005048010594 active site residue [active] 1005048010595 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1005048010596 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1005048010597 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 1005048010598 active site 1005048010599 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048010600 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048010601 metal binding site [ion binding]; metal-binding site 1005048010602 active site 1005048010603 I-site; other site 1005048010604 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1005048010605 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1005048010606 NAD(P) binding site [chemical binding]; other site 1005048010607 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048010608 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048010609 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048010610 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048010611 Cytochrome c; Region: Cytochrom_C; cl11414 1005048010612 Cytochrome c; Region: Cytochrom_C; cl11414 1005048010613 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1005048010614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048010615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048010616 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 1005048010617 Ligand Binding Site [chemical binding]; other site 1005048010618 PAS fold; Region: PAS_4; pfam08448 1005048010619 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 1005048010620 putative active site [active] 1005048010621 heme pocket [chemical binding]; other site 1005048010622 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1005048010623 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 1005048010624 ATP binding site [chemical binding]; other site 1005048010625 Mg2+ binding site [ion binding]; other site 1005048010626 G-X-G motif; other site 1005048010627 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1005048010628 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 1005048010629 active site 1005048010630 phosphorylation site [posttranslational modification] 1005048010631 intermolecular recognition site; other site 1005048010632 dimerization interface [polypeptide binding]; other site 1005048010633 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048010634 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 1005048010635 active site 1005048010636 phosphorylation site [posttranslational modification] 1005048010637 intermolecular recognition site; other site 1005048010638 dimerization interface [polypeptide binding]; other site 1005048010639 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 1005048010640 DNA binding residues [nucleotide binding] 1005048010641 dimerization interface [polypeptide binding]; other site 1005048010642 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1005048010643 CsbD-like; Region: CsbD; cl17424 1005048010644 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1005048010645 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 1005048010646 active site 1005048010647 FMN binding site [chemical binding]; other site 1005048010648 substrate binding site [chemical binding]; other site 1005048010649 3Fe-4S cluster binding site [ion binding]; other site 1005048010650 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 1005048010651 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1005048010652 C-terminal domain interface [polypeptide binding]; other site 1005048010653 GSH binding site (G-site) [chemical binding]; other site 1005048010654 putative dimer interface [polypeptide binding]; other site 1005048010655 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1005048010656 dimer interface [polypeptide binding]; other site 1005048010657 N-terminal domain interface [polypeptide binding]; other site 1005048010658 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1005048010659 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 1005048010660 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1005048010661 aminotransferase; Validated; Region: PRK07337 1005048010662 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 1005048010663 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048010664 homodimer interface [polypeptide binding]; other site 1005048010665 catalytic residue [active] 1005048010666 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1005048010667 putative RNA binding site [nucleotide binding]; other site 1005048010668 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 1005048010669 homopentamer interface [polypeptide binding]; other site 1005048010670 active site 1005048010671 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1005048010672 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1005048010673 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1005048010674 dimerization interface [polypeptide binding]; other site 1005048010675 active site 1005048010676 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1005048010677 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 1005048010678 FMN binding site [chemical binding]; other site 1005048010679 active site 1005048010680 catalytic residues [active] 1005048010681 substrate binding site [chemical binding]; other site 1005048010682 PAAR motif; Region: PAAR_motif; pfam05488 1005048010683 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 1005048010684 active site 1005048010685 Zn binding site [ion binding]; other site 1005048010686 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1005048010687 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 1005048010688 inhibitor-cofactor binding pocket; inhibition site 1005048010689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048010690 catalytic residue [active] 1005048010691 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1005048010692 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1005048010693 G1 box; other site 1005048010694 putative GEF interaction site [polypeptide binding]; other site 1005048010695 GTP/Mg2+ binding site [chemical binding]; other site 1005048010696 Switch I region; other site 1005048010697 G2 box; other site 1005048010698 G3 box; other site 1005048010699 Switch II region; other site 1005048010700 G4 box; other site 1005048010701 G5 box; other site 1005048010702 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 1005048010703 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 1005048010704 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 1005048010705 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1005048010706 RNA binding site [nucleotide binding]; other site 1005048010707 active site 1005048010708 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1005048010709 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1005048010710 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1005048010711 translation initiation factor IF-2; Region: IF-2; TIGR00487 1005048010712 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1005048010713 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1005048010714 G1 box; other site 1005048010715 putative GEF interaction site [polypeptide binding]; other site 1005048010716 GTP/Mg2+ binding site [chemical binding]; other site 1005048010717 Switch I region; other site 1005048010718 G2 box; other site 1005048010719 G3 box; other site 1005048010720 Switch II region; other site 1005048010721 G4 box; other site 1005048010722 G5 box; other site 1005048010723 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 1005048010724 Translation-initiation factor 2; Region: IF-2; pfam11987 1005048010725 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 1005048010726 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1005048010727 NusA N-terminal domain; Region: NusA_N; pfam08529 1005048010728 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 1005048010729 RNA binding site [nucleotide binding]; other site 1005048010730 homodimer interface [polypeptide binding]; other site 1005048010731 NusA-like KH domain; Region: KH_5; pfam13184 1005048010732 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 1005048010733 G-X-X-G motif; other site 1005048010734 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1005048010735 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1005048010736 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1005048010737 putative oligomer interface [polypeptide binding]; other site 1005048010738 putative RNA binding site [nucleotide binding]; other site 1005048010739 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1005048010740 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 1005048010741 RNA binding surface [nucleotide binding]; other site 1005048010742 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1005048010743 probable active site [active] 1005048010744 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1005048010745 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1005048010746 active site 1005048010747 homotetramer interface [polypeptide binding]; other site 1005048010748 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1005048010749 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1005048010750 active site 1005048010751 catalytic site [active] 1005048010752 tetramer interface [polypeptide binding]; other site 1005048010753 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048010754 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 1005048010755 trimer interface [polypeptide binding]; other site 1005048010756 eyelet of channel; other site 1005048010757 aldolase II superfamily protein; Provisional; Region: PRK07044 1005048010758 intersubunit interface [polypeptide binding]; other site 1005048010759 active site 1005048010760 Zn2+ binding site [ion binding]; other site 1005048010761 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 1005048010762 active site 1 [active] 1005048010763 dimer interface [polypeptide binding]; other site 1005048010764 hexamer interface [polypeptide binding]; other site 1005048010765 active site 2 [active] 1005048010766 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1005048010767 active sites [active] 1005048010768 tetramer interface [polypeptide binding]; other site 1005048010769 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1005048010770 Predicted membrane protein [Function unknown]; Region: COG3748 1005048010771 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048010772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048010773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010774 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 1005048010775 putative substrate binding pocket [chemical binding]; other site 1005048010776 putative dimerization interface [polypeptide binding]; other site 1005048010777 xanthine permease; Region: pbuX; TIGR03173 1005048010778 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 1005048010779 unknown domain/N-carbamoyl-L-amino acid hydrolase fusion protein; Provisional; Region: PRK13799 1005048010780 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1005048010781 active site 1005048010782 metal binding site [ion binding]; metal-binding site 1005048010783 dimer interface [polypeptide binding]; other site 1005048010784 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1005048010785 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 1005048010786 active site 1005048010787 putative substrate binding pocket [chemical binding]; other site 1005048010788 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1005048010789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048010790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048010791 NAD(P) binding site [chemical binding]; other site 1005048010792 active site 1005048010793 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1005048010794 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 1005048010795 dimer interface [polypeptide binding]; other site 1005048010796 active site 1005048010797 lipase chaperone; Provisional; Region: PRK01294 1005048010798 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 1005048010799 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1005048010800 Lipase (class 2); Region: Lipase_2; pfam01674 1005048010801 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048010802 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048010803 pyruvate kinase; Provisional; Region: PRK06247 1005048010804 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 1005048010805 domain interfaces; other site 1005048010806 active site 1005048010807 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1005048010808 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1005048010809 MOFRL family; Region: MOFRL; pfam05161 1005048010810 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1005048010811 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1005048010812 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1005048010813 glyoxylate carboligase; Provisional; Region: PRK11269 1005048010814 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1005048010815 PYR/PP interface [polypeptide binding]; other site 1005048010816 dimer interface [polypeptide binding]; other site 1005048010817 TPP binding site [chemical binding]; other site 1005048010818 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1005048010819 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1005048010820 TPP-binding site [chemical binding]; other site 1005048010821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010822 transcriptional activator TtdR; Provisional; Region: PRK09801 1005048010823 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 1005048010824 putative effector binding pocket; other site 1005048010825 dimerization interface [polypeptide binding]; other site 1005048010826 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005048010827 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048010828 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048010829 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_C39C; cd02419 1005048010830 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1005048010831 putative active site [active] 1005048010832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048010833 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1005048010834 Walker A/P-loop; other site 1005048010835 ATP binding site [chemical binding]; other site 1005048010836 Q-loop/lid; other site 1005048010837 ABC transporter signature motif; other site 1005048010838 Walker B; other site 1005048010839 D-loop; other site 1005048010840 H-loop/switch region; other site 1005048010841 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1005048010842 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1005048010843 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1005048010844 HIGH motif; other site 1005048010845 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1005048010846 active site 1005048010847 KMSKS motif; other site 1005048010848 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1005048010849 Cupin domain; Region: Cupin_2; cl17218 1005048010850 antiporter inner membrane protein; Provisional; Region: PRK11670 1005048010851 Domain of unknown function DUF59; Region: DUF59; pfam01883 1005048010852 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 1005048010853 Walker A motif; other site 1005048010854 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1005048010855 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1005048010856 active site 1005048010857 HIGH motif; other site 1005048010858 KMSKS motif; other site 1005048010859 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1005048010860 tRNA binding surface [nucleotide binding]; other site 1005048010861 anticodon binding site; other site 1005048010862 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 1005048010863 dimer interface [polypeptide binding]; other site 1005048010864 putative tRNA-binding site [nucleotide binding]; other site 1005048010865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048010866 Coenzyme A binding pocket [chemical binding]; other site 1005048010867 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1005048010868 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1005048010869 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1005048010870 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1005048010871 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1005048010872 active site 1005048010873 ATP-binding site [chemical binding]; other site 1005048010874 pantoate-binding site; other site 1005048010875 HXXH motif; other site 1005048010876 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1005048010877 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 1005048010878 cobalamin binding residues [chemical binding]; other site 1005048010879 putative BtuC binding residues; other site 1005048010880 dimer interface [polypeptide binding]; other site 1005048010881 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1005048010882 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1005048010883 Walker A/P-loop; other site 1005048010884 ATP binding site [chemical binding]; other site 1005048010885 Q-loop/lid; other site 1005048010886 ABC transporter signature motif; other site 1005048010887 Walker B; other site 1005048010888 D-loop; other site 1005048010889 H-loop/switch region; other site 1005048010890 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 1005048010891 dimer interface [polypeptide binding]; other site 1005048010892 putative PBP binding regions; other site 1005048010893 ABC-ATPase subunit interface; other site 1005048010894 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1005048010895 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 1005048010896 N-terminal plug; other site 1005048010897 ligand-binding site [chemical binding]; other site 1005048010898 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1005048010899 HPP family; Region: HPP; pfam04982 1005048010900 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1005048010901 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048010902 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1005048010903 putative ligand binding site [chemical binding]; other site 1005048010904 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048010905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048010906 DNA-binding site [nucleotide binding]; DNA binding site 1005048010907 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005048010908 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1005048010909 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1005048010910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1005048010911 putative aldolase; Validated; Region: PRK08130 1005048010912 intersubunit interface [polypeptide binding]; other site 1005048010913 active site 1005048010914 Zn2+ binding site [ion binding]; other site 1005048010915 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1005048010916 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 1005048010917 putative substrate translocation pore; other site 1005048010918 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1005048010919 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048010920 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1005048010921 putative NAD(P) binding site [chemical binding]; other site 1005048010922 active site 1005048010923 putative substrate binding site [chemical binding]; other site 1005048010924 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1005048010925 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005048010926 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1005048010927 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 1005048010928 S-adenosylmethionine binding site [chemical binding]; other site 1005048010929 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1005048010930 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1005048010931 putative ion selectivity filter; other site 1005048010932 putative pore gating glutamate residue; other site 1005048010933 putative H+/Cl- coupling transport residue; other site 1005048010934 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 1005048010935 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048010936 putative substrate translocation pore; other site 1005048010937 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 1005048010938 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1005048010939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010940 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1005048010941 substrate binding site [chemical binding]; other site 1005048010942 dimerization interface [polypeptide binding]; other site 1005048010943 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1005048010944 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1005048010945 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1005048010946 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1005048010947 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1005048010948 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1005048010949 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 1005048010950 Active Sites [active] 1005048010951 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1005048010952 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 1005048010953 Active Sites [active] 1005048010954 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 1005048010955 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 1005048010956 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1005048010957 CysD dimerization site [polypeptide binding]; other site 1005048010958 G1 box; other site 1005048010959 putative GEF interaction site [polypeptide binding]; other site 1005048010960 GTP/Mg2+ binding site [chemical binding]; other site 1005048010961 Switch I region; other site 1005048010962 G2 box; other site 1005048010963 G3 box; other site 1005048010964 Switch II region; other site 1005048010965 G4 box; other site 1005048010966 G5 box; other site 1005048010967 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 1005048010968 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 1005048010969 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1005048010970 active site 1005048010971 SAM binding site [chemical binding]; other site 1005048010972 homodimer interface [polypeptide binding]; other site 1005048010973 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 1005048010974 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048010975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048010976 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048010977 dimerization interface [polypeptide binding]; other site 1005048010978 substrate binding pocket [chemical binding]; other site 1005048010979 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 1005048010980 putative active site [active] 1005048010981 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1005048010982 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1005048010983 Predicted permeases [General function prediction only]; Region: COG0795 1005048010984 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1005048010985 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1005048010986 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 1005048010987 interface (dimer of trimers) [polypeptide binding]; other site 1005048010988 Substrate-binding/catalytic site; other site 1005048010989 Zn-binding sites [ion binding]; other site 1005048010990 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 1005048010991 active site 1005048010992 putative catalytic site [active] 1005048010993 metal binding site A [ion binding]; metal-binding site 1005048010994 putative phosphate binding site [ion binding]; other site 1005048010995 DNA binding site [nucleotide binding] 1005048010996 putative AP binding site [nucleotide binding]; other site 1005048010997 putative metal binding site B [ion binding]; other site 1005048010998 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1005048010999 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1005048011000 NHL repeat; Region: NHL; pfam01436 1005048011001 NHL repeat; Region: NHL; pfam01436 1005048011002 NHL repeat; Region: NHL; pfam01436 1005048011003 NHL repeat; Region: NHL; pfam01436 1005048011004 NHL repeat; Region: NHL; pfam01436 1005048011005 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1005048011006 MarR family; Region: MarR; pfam01047 1005048011007 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 1005048011008 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1005048011009 putative substrate translocation pore; other site 1005048011010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048011011 Serine hydrolase; Region: Ser_hydrolase; cl17834 1005048011012 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1005048011013 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1005048011014 probable active site [active] 1005048011015 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1005048011016 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048011017 Coenzyme A binding pocket [chemical binding]; other site 1005048011018 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1005048011019 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048011020 acyl-activating enzyme (AAE) consensus motif; other site 1005048011021 AMP binding site [chemical binding]; other site 1005048011022 active site 1005048011023 CoA binding site [chemical binding]; other site 1005048011024 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1005048011025 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1005048011026 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1005048011027 Subgroup of 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)...; Region: Ec2MCS_like_1; cd06117 1005048011028 dimer interface [polypeptide binding]; other site 1005048011029 active site 1005048011030 citrylCoA binding site [chemical binding]; other site 1005048011031 oxalacetate/citrate binding site [chemical binding]; other site 1005048011032 coenzyme A binding site [chemical binding]; other site 1005048011033 catalytic triad [active] 1005048011034 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1005048011035 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 1005048011036 tetramer interface [polypeptide binding]; other site 1005048011037 active site 1005048011038 Mg2+/Mn2+ binding site [ion binding]; other site 1005048011039 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 1005048011040 Propionate catabolism activator; Region: PrpR_N; pfam06506 1005048011041 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 1005048011042 Walker A motif; other site 1005048011043 ATP binding site [chemical binding]; other site 1005048011044 Walker B motif; other site 1005048011045 arginine finger; other site 1005048011046 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048011047 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 1005048011048 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1005048011049 active site 1005048011050 phosphorylation site [posttranslational modification] 1005048011051 intermolecular recognition site; other site 1005048011052 dimerization interface [polypeptide binding]; other site 1005048011053 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 1005048011054 Walker A motif; other site 1005048011055 ATP binding site [chemical binding]; other site 1005048011056 Walker B motif; other site 1005048011057 arginine finger; other site 1005048011058 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048011059 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1005048011060 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 1005048011061 dimer interface [polypeptide binding]; other site 1005048011062 phosphorylation site [posttranslational modification] 1005048011063 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 1005048011064 ATP binding site [chemical binding]; other site 1005048011065 Mg2+ binding site [ion binding]; other site 1005048011066 G-X-G motif; other site 1005048011067 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1005048011068 glutamine synthetase; Provisional; Region: glnA; PRK09469 1005048011069 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1005048011070 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1005048011071 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1005048011072 active site residue [active] 1005048011073 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1005048011074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048011075 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1005048011076 Coenzyme A binding pocket [chemical binding]; other site 1005048011077 ornithine cyclodeaminase; Validated; Region: PRK07340 1005048011078 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1005048011079 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1005048011080 Proline racemase; Region: Pro_racemase; pfam05544 1005048011081 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048011082 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 1005048011083 dimerization interface [polypeptide binding]; other site 1005048011084 ligand binding site [chemical binding]; other site 1005048011085 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1005048011086 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 1005048011087 substrate binding pocket [chemical binding]; other site 1005048011088 membrane-bound complex binding site; other site 1005048011089 hinge residues; other site 1005048011090 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048011091 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 1005048011092 dimer interface [polypeptide binding]; other site 1005048011093 conserved gate region; other site 1005048011094 putative PBP binding loops; other site 1005048011095 ABC-ATPase subunit interface; other site 1005048011096 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1005048011097 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 1005048011098 substrate binding pocket [chemical binding]; other site 1005048011099 membrane-bound complex binding site; other site 1005048011100 hinge residues; other site 1005048011101 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048011102 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048011103 Walker A/P-loop; other site 1005048011104 ATP binding site [chemical binding]; other site 1005048011105 Q-loop/lid; other site 1005048011106 ABC transporter signature motif; other site 1005048011107 Walker B; other site 1005048011108 D-loop; other site 1005048011109 H-loop/switch region; other site 1005048011110 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1005048011111 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1005048011112 putative NAD(P) binding site [chemical binding]; other site 1005048011113 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1005048011114 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 1005048011115 catalytic loop [active] 1005048011116 iron binding site [ion binding]; other site 1005048011117 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 1005048011118 FAD binding pocket [chemical binding]; other site 1005048011119 FAD binding motif [chemical binding]; other site 1005048011120 phosphate binding motif [ion binding]; other site 1005048011121 beta-alpha-beta structure motif; other site 1005048011122 NAD binding pocket [chemical binding]; other site 1005048011123 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1005048011124 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 1005048011125 inhibitor-cofactor binding pocket; inhibition site 1005048011126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048011127 catalytic residue [active] 1005048011128 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1005048011129 NlpC/P60 family; Region: NLPC_P60; pfam00877 1005048011130 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 1005048011131 E3 interaction surface; other site 1005048011132 lipoyl attachment site [posttranslational modification]; other site 1005048011133 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 1005048011134 E3 interaction surface; other site 1005048011135 lipoyl attachment site [posttranslational modification]; other site 1005048011136 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1005048011137 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048011138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048011139 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1005048011140 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1005048011141 active site 1005048011142 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1005048011143 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 1005048011144 E3 interaction surface; other site 1005048011145 lipoyl attachment site [posttranslational modification]; other site 1005048011146 e3 binding domain; Region: E3_binding; pfam02817 1005048011147 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1005048011148 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1005048011149 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 1005048011150 dimer interface [polypeptide binding]; other site 1005048011151 TPP-binding site [chemical binding]; other site 1005048011152 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1005048011153 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1005048011154 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 1005048011155 putative deacylase active site [active] 1005048011156 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1005048011157 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 1005048011158 active site 1005048011159 DNA binding site [nucleotide binding] 1005048011160 Int/Topo IB signature motif; other site 1005048011161 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1005048011162 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 1005048011163 DNA binding site [nucleotide binding] 1005048011164 active site 1005048011165 Predicted permeases [General function prediction only]; Region: COG0679 1005048011166 epoxyqueuosine reductase; Region: TIGR00276 1005048011167 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1005048011168 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1005048011169 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1005048011170 AMIN domain; Region: AMIN; pfam11741 1005048011171 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 1005048011172 active site 1005048011173 metal binding site [ion binding]; metal-binding site 1005048011174 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1005048011175 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1005048011176 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1005048011177 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 1005048011178 ATP binding site [chemical binding]; other site 1005048011179 Mg2+ binding site [ion binding]; other site 1005048011180 G-X-G motif; other site 1005048011181 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 1005048011182 ATP binding site [chemical binding]; other site 1005048011183 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1005048011184 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1005048011185 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1005048011186 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 1005048011187 putative major fimbrial protein SthE; Provisional; Region: PRK15292 1005048011188 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005048011189 PapC N-terminal domain; Region: PapC_N; pfam13954 1005048011190 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1005048011191 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1005048011192 PapC C-terminal domain; Region: PapC_C; pfam13953 1005048011193 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1005048011194 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1005048011195 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1005048011196 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1005048011197 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048011198 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048011199 trimer interface [polypeptide binding]; other site 1005048011200 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048011201 trimer interface [polypeptide binding]; other site 1005048011202 YadA-like C-terminal region; Region: YadA; pfam03895 1005048011203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1005048011204 YceI-like domain; Region: YceI; cl01001 1005048011205 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 1005048011206 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 1005048011207 binding surface 1005048011208 TPR motif; other site 1005048011209 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 1005048011210 TPR motif; other site 1005048011211 binding surface 1005048011212 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 1005048011213 binding surface 1005048011214 TPR motif; other site 1005048011215 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1005048011216 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 1005048011217 active site 1005048011218 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1005048011219 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1005048011220 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 1005048011221 substrate binding pocket [chemical binding]; other site 1005048011222 membrane-bound complex binding site; other site 1005048011223 hinge residues; other site 1005048011224 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 1005048011225 substrate binding pocket [chemical binding]; other site 1005048011226 membrane-bound complex binding site; other site 1005048011227 hinge residues; other site 1005048011228 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 1005048011229 putative active site [active] 1005048011230 heme pocket [chemical binding]; other site 1005048011231 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 1005048011232 dimer interface [polypeptide binding]; other site 1005048011233 phosphorylation site [posttranslational modification] 1005048011234 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 1005048011235 ATP binding site [chemical binding]; other site 1005048011236 Mg2+ binding site [ion binding]; other site 1005048011237 G-X-G motif; other site 1005048011238 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 1005048011239 active site 1005048011240 phosphorylation site [posttranslational modification] 1005048011241 intermolecular recognition site; other site 1005048011242 dimerization interface [polypeptide binding]; other site 1005048011243 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 1005048011244 putative binding surface; other site 1005048011245 active site 1005048011246 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048011247 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 1005048011248 active site 1005048011249 phosphorylation site [posttranslational modification] 1005048011250 intermolecular recognition site; other site 1005048011251 dimerization interface [polypeptide binding]; other site 1005048011252 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 1005048011253 DNA binding residues [nucleotide binding] 1005048011254 dimerization interface [polypeptide binding]; other site 1005048011255 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1005048011256 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 1005048011257 active site 1005048011258 phosphorylation site [posttranslational modification] 1005048011259 intermolecular recognition site; other site 1005048011260 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 1005048011261 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1005048011262 potential frameshift: common BLAST hit: gi|330819188|ref|YP_004348050.1| outer membrane efflux protein 1005048011263 Outer membrane efflux protein; Region: OEP; pfam02321 1005048011264 Outer membrane efflux protein; Region: OEP; pfam02321 1005048011265 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1005048011266 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048011267 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048011268 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1005048011269 putative active site [active] 1005048011270 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1005048011271 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048011272 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1005048011273 Walker A/P-loop; other site 1005048011274 ATP binding site [chemical binding]; other site 1005048011275 Q-loop/lid; other site 1005048011276 ABC transporter signature motif; other site 1005048011277 Walker B; other site 1005048011278 D-loop; other site 1005048011279 H-loop/switch region; other site 1005048011280 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011281 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1005048011282 hypothetical protein; Provisional; Region: PRK14013 1005048011283 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 1005048011284 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005048011285 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048011286 ligand binding site [chemical binding]; other site 1005048011287 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011288 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011289 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011290 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011291 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011292 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011293 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011294 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011295 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011296 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011297 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1005048011298 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1005048011299 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1005048011300 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1005048011301 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1005048011302 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1005048011303 PilX N-terminal; Region: PilX_N; pfam14341 1005048011304 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1005048011305 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1005048011306 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1005048011307 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1005048011308 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 1005048011309 FeS/SAM binding site; other site 1005048011310 TRAM domain; Region: TRAM; pfam01938 1005048011311 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1005048011312 PhoH-like protein; Region: PhoH; pfam02562 1005048011313 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1005048011314 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1005048011315 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1005048011316 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1005048011317 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 1005048011318 Moco binding site; other site 1005048011319 metal coordination site [ion binding]; other site 1005048011320 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1005048011321 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 1005048011322 Transporter associated domain; Region: CorC_HlyC; smart01091 1005048011323 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1005048011324 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1005048011325 putative active site [active] 1005048011326 catalytic triad [active] 1005048011327 putative dimer interface [polypeptide binding]; other site 1005048011328 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 1005048011329 dimer interface [polypeptide binding]; other site 1005048011330 motif 1; other site 1005048011331 active site 1005048011332 motif 2; other site 1005048011333 motif 3; other site 1005048011334 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1005048011335 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1005048011336 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1005048011337 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 1005048011338 active site 1005048011339 motif I; other site 1005048011340 motif II; other site 1005048011341 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1005048011342 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1005048011343 putative acyl-acceptor binding pocket; other site 1005048011344 Protein of unknown function DUF45; Region: DUF45; pfam01863 1005048011345 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1005048011346 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1005048011347 dimer interface [polypeptide binding]; other site 1005048011348 active site 1005048011349 metal binding site [ion binding]; metal-binding site 1005048011350 glutathione binding site [chemical binding]; other site 1005048011351 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048011352 trimer interface [polypeptide binding]; other site 1005048011353 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048011354 trimer interface [polypeptide binding]; other site 1005048011355 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1005048011356 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1005048011357 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 1005048011358 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1005048011359 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1005048011360 SurA N-terminal domain; Region: SurA_N; pfam09312 1005048011361 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1005048011362 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1005048011363 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1005048011364 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1005048011365 Phosphotransferase enzyme family; Region: APH; pfam01636 1005048011366 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1005048011367 substrate binding site [chemical binding]; other site 1005048011368 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1005048011369 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1005048011370 Substrate binding site; other site 1005048011371 metal-binding site 1005048011372 proline aminopeptidase P II; Provisional; Region: PRK10879 1005048011373 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1005048011374 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 1005048011375 active site 1005048011376 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1005048011377 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1005048011378 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048011379 hypothetical protein; Provisional; Region: PRK06996 1005048011380 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1005048011381 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1005048011382 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1005048011383 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1005048011384 tetramerization interface [polypeptide binding]; other site 1005048011385 active site 1005048011386 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1005048011387 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1005048011388 ligand binding site [chemical binding]; other site 1005048011389 homodimer interface [polypeptide binding]; other site 1005048011390 NAD(P) binding site [chemical binding]; other site 1005048011391 trimer interface B [polypeptide binding]; other site 1005048011392 trimer interface A [polypeptide binding]; other site 1005048011393 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 1005048011394 nudix motif; other site 1005048011395 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1005048011396 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 1005048011397 Ligand Binding Site [chemical binding]; other site 1005048011398 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 1005048011399 Outer membrane efflux protein; Region: OEP; pfam02321 1005048011400 Outer membrane efflux protein; Region: OEP; pfam02321 1005048011401 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1005048011402 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1005048011403 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1005048011404 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1005048011405 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1005048011406 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048011407 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1005048011408 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1005048011409 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1005048011410 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 1005048011411 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1005048011412 YceI-like domain; Region: YceI; smart00867 1005048011413 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1005048011414 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1005048011415 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1005048011416 putative active site [active] 1005048011417 putative metal binding site [ion binding]; other site 1005048011418 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1005048011419 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1005048011420 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1005048011421 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 1005048011422 ATP binding site [chemical binding]; other site 1005048011423 Mg2+ binding site [ion binding]; other site 1005048011424 G-X-G motif; other site 1005048011425 Peptidase family M1; Region: Peptidase_M1; pfam01433 1005048011426 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1005048011427 Zn binding site [ion binding]; other site 1005048011428 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 1005048011429 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1005048011430 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1005048011431 active site 1005048011432 Zn binding site [ion binding]; other site 1005048011433 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048011434 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048011435 putative ligand binding site [chemical binding]; other site 1005048011436 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1005048011437 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1005048011438 putative ligand binding site [chemical binding]; other site 1005048011439 NAD binding site [chemical binding]; other site 1005048011440 catalytic site [active] 1005048011441 galactosyl transferase GMA12/MNN10 family; Region: Glyco_transf_34; cl05288 1005048011442 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1005048011443 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1005048011444 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1005048011445 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1005048011446 active site 1005048011447 homodimer interface [polypeptide binding]; other site 1005048011448 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1005048011449 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1005048011450 DXD motif; other site 1005048011451 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1005048011452 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1005048011453 LexA regulated protein; Provisional; Region: PRK11675 1005048011454 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048011455 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 1005048011456 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1005048011457 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1005048011458 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 1005048011459 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 1005048011460 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005048011461 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1005048011462 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1005048011463 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1005048011464 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; cl00047 1005048011465 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 1005048011466 non-specific DNA interactions [nucleotide binding]; other site 1005048011467 DNA binding site [nucleotide binding] 1005048011468 sequence specific DNA binding site [nucleotide binding]; other site 1005048011469 putative cAMP binding site [chemical binding]; other site 1005048011470 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1005048011471 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 1005048011472 putative active site [active] 1005048011473 heme pocket [chemical binding]; other site 1005048011474 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 1005048011475 putative active site [active] 1005048011476 heme pocket [chemical binding]; other site 1005048011477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048011478 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 1005048011479 dimer interface [polypeptide binding]; other site 1005048011480 phosphorylation site [posttranslational modification] 1005048011481 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 1005048011482 ATP binding site [chemical binding]; other site 1005048011483 Mg2+ binding site [ion binding]; other site 1005048011484 G-X-G motif; other site 1005048011485 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048011486 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 1005048011487 active site 1005048011488 phosphorylation site [posttranslational modification] 1005048011489 intermolecular recognition site; other site 1005048011490 dimerization interface [polypeptide binding]; other site 1005048011491 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048011492 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 1005048011493 active site 1005048011494 phosphorylation site [posttranslational modification] 1005048011495 intermolecular recognition site; other site 1005048011496 dimerization interface [polypeptide binding]; other site 1005048011497 PAS domain; Region: PAS_9; pfam13426 1005048011498 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1005048011499 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1005048011500 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048011501 Coenzyme A binding pocket [chemical binding]; other site 1005048011502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048011503 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048011504 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1005048011505 putative effector binding pocket; other site 1005048011506 putative dimerization interface [polypeptide binding]; other site 1005048011507 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 1005048011508 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048011509 active site 1005048011510 catalytic tetrad [active] 1005048011511 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048011512 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 1005048011513 S-adenosylmethionine binding site [chemical binding]; other site 1005048011514 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1005048011515 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 1005048011516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048011517 DNA-binding site [nucleotide binding]; DNA binding site 1005048011518 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 1005048011519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048011520 homodimer interface [polypeptide binding]; other site 1005048011521 catalytic residue [active] 1005048011522 PAAR motif; Region: PAAR_motif; pfam05488 1005048011523 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1005048011524 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1005048011525 putative NAD(P) binding site [chemical binding]; other site 1005048011526 short chain dehydrogenase; Provisional; Region: PRK06179 1005048011527 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1005048011528 NADP binding site [chemical binding]; other site 1005048011529 active site 1005048011530 steroid binding site; other site 1005048011531 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1005048011532 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048011533 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1005048011534 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 1005048011535 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1005048011536 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 1005048011537 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1005048011538 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1005048011539 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1005048011540 thiamine monophosphate kinase; Provisional; Region: PRK05731 1005048011541 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 1005048011542 ATP binding site [chemical binding]; other site 1005048011543 dimerization interface [polypeptide binding]; other site 1005048011544 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1005048011545 tetramer interfaces [polypeptide binding]; other site 1005048011546 binuclear metal-binding site [ion binding]; other site 1005048011547 Competence-damaged protein; Region: CinA; pfam02464 1005048011548 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 1005048011549 active site 1005048011550 dimer interface [polypeptide binding]; other site 1005048011551 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1005048011552 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1005048011553 Repair protein; Region: Repair_PSII; pfam04536 1005048011554 Repair protein; Region: Repair_PSII; cl01535 1005048011555 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1005048011556 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1005048011557 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1005048011558 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1005048011559 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1005048011560 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 1005048011561 motif II; other site 1005048011562 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1005048011563 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1005048011564 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1005048011565 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1005048011566 HlyD family secretion protein; Region: HlyD_3; pfam13437 1005048011567 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1005048011568 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1005048011569 sugar binding site [chemical binding]; other site 1005048011570 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 1005048011571 sugar binding site [chemical binding]; other site 1005048011572 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1005048011573 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1005048011574 Helix-turn-helix domain; Region: HTH_17; pfam12728 1005048011575 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 1005048011576 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048011577 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 1005048011578 trimer interface [polypeptide binding]; other site 1005048011579 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1005048011580 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1005048011581 active site 1005048011582 homotetramer interface [polypeptide binding]; other site 1005048011583 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 1005048011584 Integrase core domain; Region: rve_3; cl15866 1005048011585 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 1005048011586 oligomerisation interface [polypeptide binding]; other site 1005048011587 mobile loop; other site 1005048011588 roof hairpin; other site 1005048011589 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1005048011590 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 1005048011591 ring oligomerisation interface [polypeptide binding]; other site 1005048011592 ATP/Mg binding site [chemical binding]; other site 1005048011593 stacking interactions; other site 1005048011594 hinge regions; other site 1005048011595 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1005048011596 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1005048011597 Walker A/P-loop; other site 1005048011598 ATP binding site [chemical binding]; other site 1005048011599 Q-loop/lid; other site 1005048011600 ABC transporter signature motif; other site 1005048011601 Walker B; other site 1005048011602 D-loop; other site 1005048011603 H-loop/switch region; other site 1005048011604 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1005048011605 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 1005048011606 dimer interface [polypeptide binding]; other site 1005048011607 conserved gate region; other site 1005048011608 ABC-ATPase subunit interface; other site 1005048011609 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1005048011610 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1005048011611 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005048011612 trimer interface [polypeptide binding]; other site 1005048011613 Haemagglutinin; Region: HIM; pfam05662 1005048011614 YadA-like C-terminal region; Region: YadA; pfam03895 1005048011615 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048011616 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048011617 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1005048011618 trimer interface [polypeptide binding]; other site 1005048011619 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005048011620 trimer interface [polypeptide binding]; other site 1005048011621 Haemagglutinin; Region: HIM; pfam05662 1005048011622 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1005048011623 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1005048011624 trimer interface [polypeptide binding]; other site 1005048011625 Haemagglutinin; Region: HIM; pfam05662 1005048011626 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 1005048011627 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1005048011628 GTP/Mg2+ binding site [chemical binding]; other site 1005048011629 G4 box; other site 1005048011630 G5 box; other site 1005048011631 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1005048011632 G1 box; other site 1005048011633 G1 box; other site 1005048011634 GTP/Mg2+ binding site [chemical binding]; other site 1005048011635 Switch I region; other site 1005048011636 G2 box; other site 1005048011637 G2 box; other site 1005048011638 Switch I region; other site 1005048011639 G3 box; other site 1005048011640 G3 box; other site 1005048011641 Switch II region; other site 1005048011642 Switch II region; other site 1005048011643 G5 box; other site 1005048011644 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1005048011645 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1005048011646 putative active site [active] 1005048011647 Zn binding site [ion binding]; other site 1005048011648 MoxR-like ATPases [General function prediction only]; Region: COG0714 1005048011649 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 1005048011650 Walker A motif; other site 1005048011651 ATP binding site [chemical binding]; other site 1005048011652 Walker B motif; other site 1005048011653 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1005048011654 Protein of unknown function DUF58; Region: DUF58; pfam01882 1005048011655 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1005048011656 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1005048011657 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1005048011658 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1005048011659 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 1005048011660 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048011661 catalytic residue [active] 1005048011662 YaeQ protein; Region: YaeQ; pfam07152 1005048011663 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1005048011664 cysteine synthase B; Region: cysM; TIGR01138 1005048011665 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 1005048011666 dimer interface [polypeptide binding]; other site 1005048011667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048011668 catalytic residue [active] 1005048011669 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 1005048011670 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048011671 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 1005048011672 putative ribose interaction site [chemical binding]; other site 1005048011673 putative ADP binding site [chemical binding]; other site 1005048011674 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1005048011675 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1005048011676 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1005048011677 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1005048011678 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1005048011679 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 1005048011680 binding surface 1005048011681 TPR motif; other site 1005048011682 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 1005048011683 binding surface 1005048011684 TPR motif; other site 1005048011685 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 1005048011686 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 1005048011687 IHF dimer interface [polypeptide binding]; other site 1005048011688 IHF - DNA interface [nucleotide binding]; other site 1005048011689 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1005048011690 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1005048011691 RNA binding site [nucleotide binding]; other site 1005048011692 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 1005048011693 RNA binding site [nucleotide binding]; other site 1005048011694 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 1005048011695 RNA binding site [nucleotide binding]; other site 1005048011696 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 1005048011697 RNA binding site [nucleotide binding]; other site 1005048011698 S1_RPS1_repeat_ec5: 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_ec5; cd05690 1005048011699 RNA binding site [nucleotide binding]; other site 1005048011700 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 1005048011701 RNA binding site [nucleotide binding]; other site 1005048011702 cytidylate kinase; Provisional; Region: cmk; PRK00023 1005048011703 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 1005048011704 CMP-binding site; other site 1005048011705 The sites determining sugar specificity; other site 1005048011706 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1005048011707 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 1005048011708 ATP binding site [chemical binding]; other site 1005048011709 putative Mg++ binding site [ion binding]; other site 1005048011710 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 1005048011711 nucleotide binding region [chemical binding]; other site 1005048011712 ATP-binding site [chemical binding]; other site 1005048011713 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 1005048011714 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1005048011715 hinge; other site 1005048011716 active site 1005048011717 prephenate dehydrogenase; Validated; Region: PRK08507 1005048011718 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1005048011719 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 1005048011720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048011721 homodimer interface [polypeptide binding]; other site 1005048011722 catalytic residue [active] 1005048011723 Chorismate mutase type II; Region: CM_2; smart00830 1005048011724 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1005048011725 Prephenate dehydratase; Region: PDT; pfam00800 1005048011726 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 1005048011727 putative L-Phe binding site [chemical binding]; other site 1005048011728 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 1005048011729 homodimer interface [polypeptide binding]; other site 1005048011730 substrate-cofactor binding pocket; other site 1005048011731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048011732 catalytic residue [active] 1005048011733 DNA gyrase subunit A; Validated; Region: PRK05560 1005048011734 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 1005048011735 CAP-like domain; other site 1005048011736 active site 1005048011737 primary dimer interface [polypeptide binding]; other site 1005048011738 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011739 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011740 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011741 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011742 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011743 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1005048011744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048011745 ligand binding site [chemical binding]; other site 1005048011746 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005048011747 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048011748 ligand binding site [chemical binding]; other site 1005048011749 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1005048011750 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 1005048011751 S-adenosylmethionine binding site [chemical binding]; other site 1005048011752 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1005048011753 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 1005048011754 motif II; other site 1005048011755 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1005048011756 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1005048011757 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1005048011758 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1005048011759 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1005048011760 ligand binding site [chemical binding]; other site 1005048011761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048011762 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 1005048011763 ATP binding site [chemical binding]; other site 1005048011764 Mg2+ binding site [ion binding]; other site 1005048011765 G-X-G motif; other site 1005048011766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048011767 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 1005048011768 active site 1005048011769 phosphorylation site [posttranslational modification] 1005048011770 intermolecular recognition site; other site 1005048011771 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 1005048011772 DNA binding site [nucleotide binding] 1005048011773 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1005048011774 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1005048011775 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1005048011776 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048011777 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 1005048011778 substrate binding pocket [chemical binding]; other site 1005048011779 membrane-bound complex binding site; other site 1005048011780 hinge residues; other site 1005048011781 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1005048011782 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1005048011783 Chromate transporter; Region: Chromate_transp; pfam02417 1005048011784 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...; Region: Barstar_like; cl01048 1005048011785 RNAase interaction site [polypeptide binding]; other site 1005048011786 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1005048011787 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1005048011788 active site 1005048011789 metal binding site [ion binding]; metal-binding site 1005048011790 hexamer interface [polypeptide binding]; other site 1005048011791 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005048011792 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048011793 Walker A/P-loop; other site 1005048011794 ATP binding site [chemical binding]; other site 1005048011795 Q-loop/lid; other site 1005048011796 ABC transporter signature motif; other site 1005048011797 Walker B; other site 1005048011798 D-loop; other site 1005048011799 H-loop/switch region; other site 1005048011800 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005048011801 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 1005048011802 dimer interface [polypeptide binding]; other site 1005048011803 conserved gate region; other site 1005048011804 putative PBP binding loops; other site 1005048011805 ABC-ATPase subunit interface; other site 1005048011806 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1005048011807 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 1005048011808 dimer interface [polypeptide binding]; other site 1005048011809 conserved gate region; other site 1005048011810 putative PBP binding loops; other site 1005048011811 ABC-ATPase subunit interface; other site 1005048011812 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005048011813 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005048011814 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048011815 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048011816 DNA binding site [nucleotide binding] 1005048011817 domain linker motif; other site 1005048011818 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 1005048011819 putative dimerization interface [polypeptide binding]; other site 1005048011820 putative ligand binding site [chemical binding]; other site 1005048011821 magnesium transport protein MgtC; Provisional; Region: PRK15385 1005048011822 MgtC family; Region: MgtC; pfam02308 1005048011823 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1005048011824 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 1005048011825 putative ATP binding site [chemical binding]; other site 1005048011826 putative substrate interface [chemical binding]; other site 1005048011827 Hemerythrin-like domain; Region: Hr-like; cd12108 1005048011828 Fe binding site [ion binding]; other site 1005048011829 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1005048011830 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1005048011831 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1005048011832 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1005048011833 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 1005048011834 S-adenosylmethionine binding site [chemical binding]; other site 1005048011835 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1005048011836 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1005048011837 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1005048011838 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1005048011839 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1005048011840 ATP-grasp domain; Region: ATP-grasp; pfam02222 1005048011841 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1005048011842 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1005048011843 ATP binding site [chemical binding]; other site 1005048011844 active site 1005048011845 substrate binding site [chemical binding]; other site 1005048011846 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1005048011847 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 1005048011848 intersubunit interface [polypeptide binding]; other site 1005048011849 active site 1005048011850 zinc binding site [ion binding]; other site 1005048011851 Na+ binding site [ion binding]; other site 1005048011852 pyruvate kinase; Provisional; Region: PRK05826 1005048011853 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 1005048011854 domain interfaces; other site 1005048011855 active site 1005048011856 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1005048011857 Phosphoglycerate kinase; Region: PGK; pfam00162 1005048011858 substrate binding site [chemical binding]; other site 1005048011859 hinge regions; other site 1005048011860 ADP binding site [chemical binding]; other site 1005048011861 catalytic site [active] 1005048011862 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1005048011863 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 1005048011864 homodimer interface [polypeptide binding]; other site 1005048011865 substrate-cofactor binding pocket; other site 1005048011866 catalytic residue [active] 1005048011867 Zinc-finger domain; Region: zf-CHCC; cl01821 1005048011868 SnoaL-like domain; Region: SnoaL_3; pfam13474 1005048011869 SnoaL-like domain; Region: SnoaL_2; pfam12680 1005048011870 putative hydrolase; Provisional; Region: PRK10985 1005048011871 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1005048011872 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1005048011873 Peptidase family M48; Region: Peptidase_M48; cl12018 1005048011874 O-Antigen ligase; Region: Wzy_C; pfam04932 1005048011875 O-Antigen ligase; Region: Wzy_C; pfam04932 1005048011876 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 1005048011877 Pilin (bacterial filament); Region: Pilin; pfam00114 1005048011878 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; cd00060 1005048011879 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1005048011880 phosphopeptide binding site; other site 1005048011881 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 1005048011882 active site 1005048011883 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1005048011884 CoA binding domain; Region: CoA_binding; smart00881 1005048011885 CoA-ligase; Region: Ligase_CoA; pfam00549 1005048011886 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1005048011887 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1005048011888 CoA-ligase; Region: Ligase_CoA; pfam00549 1005048011889 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1005048011890 RecX family; Region: RecX; cl00936 1005048011891 recombinase A; Provisional; Region: recA; PRK09354 1005048011892 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 1005048011893 hexamer interface [polypeptide binding]; other site 1005048011894 Walker A motif; other site 1005048011895 ATP binding site [chemical binding]; other site 1005048011896 Walker B motif; other site 1005048011897 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1005048011898 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1005048011899 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1005048011900 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1005048011901 FAD binding domain; Region: FAD_binding_4; pfam01565 1005048011902 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048011903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048011904 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1005048011905 dimerization interface [polypeptide binding]; other site 1005048011906 substrate binding pocket [chemical binding]; other site 1005048011907 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1005048011908 aldehyde dehydrogenase family 7 member; Region: PLN02315 1005048011909 tetrameric interface [polypeptide binding]; other site 1005048011910 NAD binding site [chemical binding]; other site 1005048011911 catalytic residues [active] 1005048011912 hypothetical protein; Provisional; Region: PRK06194 1005048011913 classical (c) SDRs; Region: SDR_c; cd05233 1005048011914 NAD(P) binding site [chemical binding]; other site 1005048011915 active site 1005048011916 short chain dehydrogenase; Provisional; Region: PRK07035 1005048011917 classical (c) SDRs; Region: SDR_c; cd05233 1005048011918 NAD(P) binding site [chemical binding]; other site 1005048011919 active site 1005048011920 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 1005048011921 catalytic core [active] 1005048011922 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 1005048011923 Phosphotransferase enzyme family; Region: APH; pfam01636 1005048011924 putative active site [active] 1005048011925 putative substrate binding site [chemical binding]; other site 1005048011926 ATP binding site [chemical binding]; other site 1005048011927 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1005048011928 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1005048011929 active site 1005048011930 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1005048011931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048011932 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 1005048011933 substrate binding pocket [chemical binding]; other site 1005048011934 dimerization interface [polypeptide binding]; other site 1005048011935 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1005048011936 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 1005048011937 non-specific DNA binding site [nucleotide binding]; other site 1005048011938 salt bridge; other site 1005048011939 sequence-specific DNA binding site [nucleotide binding]; other site 1005048011940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048011941 short chain dehydrogenase; Provisional; Region: PRK06138 1005048011942 NAD(P) binding site [chemical binding]; other site 1005048011943 active site 1005048011944 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1005048011945 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1005048011946 active site 1005048011947 HIGH motif; other site 1005048011948 dimer interface [polypeptide binding]; other site 1005048011949 KMSKS motif; other site 1005048011950 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 1005048011951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048011952 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 1005048011953 active site 1005048011954 phosphorylation site [posttranslational modification] 1005048011955 intermolecular recognition site; other site 1005048011956 dimerization interface [polypeptide binding]; other site 1005048011957 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 1005048011958 DNA binding site [nucleotide binding] 1005048011959 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1005048011960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048011961 HAMP domain; Region: HAMP; pfam00672 1005048011962 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 1005048011963 dimer interface [polypeptide binding]; other site 1005048011964 phosphorylation site [posttranslational modification] 1005048011965 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 1005048011966 ATP binding site [chemical binding]; other site 1005048011967 Mg2+ binding site [ion binding]; other site 1005048011968 G-X-G motif; other site 1005048011969 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 1005048011970 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1005048011971 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 1005048011972 hypothetical protein; Provisional; Region: PRK08201 1005048011973 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 1005048011974 putative metal binding site [ion binding]; other site 1005048011975 putative dimer interface [polypeptide binding]; other site 1005048011976 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1005048011977 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1005048011978 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1005048011979 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1005048011980 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1005048011981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1005048011982 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1005048011983 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1005048011984 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1005048011985 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 1005048011986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 1005048011987 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1005048011988 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1005048011989 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1005048011990 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048011991 putative C-terminal domain interface [polypeptide binding]; other site 1005048011992 putative GSH binding site (G-site) [chemical binding]; other site 1005048011993 putative dimer interface [polypeptide binding]; other site 1005048011994 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1005048011995 putative N-terminal domain interface [polypeptide binding]; other site 1005048011996 putative dimer interface [polypeptide binding]; other site 1005048011997 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048011998 Cupin domain; Region: Cupin_2; cl17218 1005048011999 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1005048012000 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1005048012001 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1005048012002 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1005048012003 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1005048012004 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1005048012005 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 1005048012006 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1005048012007 active site 1005048012008 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 1005048012009 oligomerization interface [polypeptide binding]; other site 1005048012010 active site 1005048012011 metal binding site [ion binding]; metal-binding site 1005048012012 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 1005048012013 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 1005048012014 Substrate-binding site [chemical binding]; other site 1005048012015 Substrate specificity [chemical binding]; other site 1005048012016 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 1005048012017 catalytic center binding site [active] 1005048012018 ATP binding site [chemical binding]; other site 1005048012019 poly(A) polymerase; Region: pcnB; TIGR01942 1005048012020 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1005048012021 active site 1005048012022 NTP binding site [chemical binding]; other site 1005048012023 metal binding triad [ion binding]; metal-binding site 1005048012024 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1005048012025 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1005048012026 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1005048012027 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1005048012028 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1005048012029 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 1005048012030 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1005048012031 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1005048012032 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1005048012033 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 1005048012034 dimerization interface [polypeptide binding]; other site 1005048012035 putative ATP binding site [chemical binding]; other site 1005048012036 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 1005048012037 active site clefts [active] 1005048012038 zinc binding site [ion binding]; other site 1005048012039 dimer interface [polypeptide binding]; other site 1005048012040 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 1005048012041 chaperone protein DnaJ; Provisional; Region: PRK10767 1005048012042 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 1005048012043 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1005048012044 substrate binding site [polypeptide binding]; other site 1005048012045 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1005048012046 Zn binding sites [ion binding]; other site 1005048012047 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1005048012048 dimer interface [polypeptide binding]; other site 1005048012049 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1005048012050 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1005048012051 nucleotide binding site [chemical binding]; other site 1005048012052 GrpE; Region: GrpE; pfam01025 1005048012053 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 1005048012054 dimer interface [polypeptide binding]; other site 1005048012055 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1005048012056 ferrochelatase; Reviewed; Region: hemH; PRK00035 1005048012057 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 1005048012058 C-terminal domain interface [polypeptide binding]; other site 1005048012059 active site 1005048012060 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 1005048012061 active site 1005048012062 N-terminal domain interface [polypeptide binding]; other site 1005048012063 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1005048012064 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1005048012065 Walker A/P-loop; other site 1005048012066 ATP binding site [chemical binding]; other site 1005048012067 Q-loop/lid; other site 1005048012068 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1005048012069 ABC transporter signature motif; other site 1005048012070 Walker B; other site 1005048012071 D-loop; other site 1005048012072 H-loop/switch region; other site 1005048012073 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1005048012074 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 1005048012075 motif II; other site 1005048012076 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1005048012077 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1005048012078 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1005048012079 ferric uptake regulator; Provisional; Region: fur; PRK09462 1005048012080 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1005048012081 metal binding site 2 [ion binding]; metal-binding site 1005048012082 putative DNA binding helix; other site 1005048012083 metal binding site 1 [ion binding]; metal-binding site 1005048012084 dimer interface [polypeptide binding]; other site 1005048012085 structural Zn2+ binding site [ion binding]; other site 1005048012086 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1005048012087 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1005048012088 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1005048012089 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1005048012090 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1005048012091 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1005048012092 active site 1005048012093 Protein of unknown function (DUF535); Region: DUF535; cl01128 1005048012094 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1005048012095 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1005048012096 HIGH motif; other site 1005048012097 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1005048012098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1005048012099 active site 1005048012100 KMSKS motif; other site 1005048012101 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1005048012102 tRNA binding surface [nucleotide binding]; other site 1005048012103 Lipopolysaccharide-assembly; Region: LptE; cl01125 1005048012104 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1005048012105 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1005048012106 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1005048012107 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1005048012108 putative catalytic cysteine [active] 1005048012109 Predicted membrane protein [Function unknown]; Region: COG1981 1005048012110 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1005048012111 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1005048012112 putative catalytic residue [active] 1005048012113 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1005048012114 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1005048012115 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 1005048012116 Hemin uptake protein hemP; Region: hemP; pfam10636 1005048012117 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1005048012118 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005048012119 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1005048012120 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1005048012121 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048012122 TolR protein; Region: tolR; TIGR02801 1005048012123 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1005048012124 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1005048012125 heme binding site [chemical binding]; other site 1005048012126 ferroxidase pore; other site 1005048012127 ferroxidase diiron center [ion binding]; other site 1005048012128 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 1005048012129 YGGT family; Region: YGGT; pfam02325 1005048012130 YGGT family; Region: YGGT; pfam02325 1005048012131 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1005048012132 dimer interface [polypeptide binding]; other site 1005048012133 putative radical transfer pathway; other site 1005048012134 diiron center [ion binding]; other site 1005048012135 tyrosyl radical; other site 1005048012136 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1005048012137 ATP cone domain; Region: ATP-cone; pfam03477 1005048012138 ATP cone domain; Region: ATP-cone; pfam03477 1005048012139 Ribosomal L18 C-terminal region; Region: Ribosomal_L18_c; pfam14204 1005048012140 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1005048012141 active site 1005048012142 dimer interface [polypeptide binding]; other site 1005048012143 catalytic residues [active] 1005048012144 effector binding site; other site 1005048012145 R2 peptide binding site; other site 1005048012146 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1005048012147 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 1005048012148 amidase catalytic site [active] 1005048012149 Zn binding residues [ion binding]; other site 1005048012150 substrate binding site [chemical binding]; other site 1005048012151 potential frameshift: common BLAST hit: gi|134095935|ref|YP_001101010.1| type 4 fimbriae expression regulatory protein 1005048012152 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1005048012153 Sigma-54 interaction domain; Region: Sigma54_activat; pfam00158 1005048012154 Walker B motif; other site 1005048012155 arginine finger; other site 1005048012156 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1005048012157 Response regulator receiver domain; Region: Response_reg; pfam00072 1005048012158 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 1005048012159 active site 1005048012160 phosphorylation site [posttranslational modification] 1005048012161 intermolecular recognition site; other site 1005048012162 dimerization interface [polypeptide binding]; other site 1005048012163 PAS domain; Region: PAS; smart00091 1005048012164 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 1005048012165 dimer interface [polypeptide binding]; other site 1005048012166 phosphorylation site [posttranslational modification] 1005048012167 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 1005048012168 ATP binding site [chemical binding]; other site 1005048012169 Mg2+ binding site [ion binding]; other site 1005048012170 G-X-G motif; other site 1005048012171 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1005048012172 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1005048012173 putative metal binding site [ion binding]; other site 1005048012174 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1005048012175 signal recognition particle protein; Provisional; Region: PRK10867 1005048012176 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1005048012177 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 1005048012178 P loop; other site 1005048012179 GTP binding site [chemical binding]; other site 1005048012180 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1005048012181 SWIB/MDM2 domain; Region: SWIB; pfam02201 1005048012182 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1005048012183 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1005048012184 active site 1005048012185 dimer interface [polypeptide binding]; other site 1005048012186 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1005048012187 dimer interface [polypeptide binding]; other site 1005048012188 Alkaline phosphatase homologues; Region: alkPPc; smart00098 1005048012189 active site 1005048012190 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1005048012191 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 1005048012192 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048012193 catalytic residue [active] 1005048012194 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1005048012195 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 1005048012196 dimer interface [polypeptide binding]; other site 1005048012197 motif 1; other site 1005048012198 active site 1005048012199 motif 2; other site 1005048012200 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 1005048012201 putative deacylase active site [active] 1005048012202 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 1005048012203 active site 1005048012204 motif 3; other site 1005048012205 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 1005048012206 anticodon binding site; other site 1005048012207 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 1005048012208 putative active site [active] 1005048012209 Ap4A binding site [chemical binding]; other site 1005048012210 nudix motif; other site 1005048012211 putative metal binding site [ion binding]; other site 1005048012212 CNP1-like family; Region: CNP1; pfam08750 1005048012213 gamma-glutamyl kinase; Provisional; Region: PRK05429 1005048012214 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 1005048012215 nucleotide binding site [chemical binding]; other site 1005048012216 homotetrameric interface [polypeptide binding]; other site 1005048012217 putative phosphate binding site [ion binding]; other site 1005048012218 putative allosteric binding site; other site 1005048012219 PUA domain; Region: PUA; pfam01472 1005048012220 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1005048012221 GTP1/OBG; Region: GTP1_OBG; pfam01018 1005048012222 Obg GTPase; Region: Obg; cd01898 1005048012223 G1 box; other site 1005048012224 GTP/Mg2+ binding site [chemical binding]; other site 1005048012225 Switch I region; other site 1005048012226 G2 box; other site 1005048012227 G3 box; other site 1005048012228 Switch II region; other site 1005048012229 G4 box; other site 1005048012230 G5 box; other site 1005048012231 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1005048012232 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1005048012233 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1005048012234 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 1005048012235 putative GSH binding site [chemical binding]; other site 1005048012236 catalytic residues [active] 1005048012237 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1005048012238 Flavoprotein; Region: Flavoprotein; pfam02441 1005048012239 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1005048012240 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1005048012241 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 1005048012242 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1005048012243 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1005048012244 Ligand binding site; other site 1005048012245 metal-binding site 1005048012246 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1005048012247 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 1005048012248 dimerization domain [polypeptide binding]; other site 1005048012249 dimer interface [polypeptide binding]; other site 1005048012250 catalytic residues [active] 1005048012251 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1005048012252 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1005048012253 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 1005048012254 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1005048012255 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1005048012256 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 1005048012257 Switch I; other site 1005048012258 Switch II; other site 1005048012259 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1005048012260 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048012261 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 1005048012262 active site 1005048012263 phosphorylation site [posttranslational modification] 1005048012264 intermolecular recognition site; other site 1005048012265 dimerization interface [polypeptide binding]; other site 1005048012266 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 1005048012267 DNA binding site [nucleotide binding] 1005048012268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1005048012269 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048012270 FecR protein; Region: FecR; pfam04773 1005048012271 CHASE2 domain; Region: CHASE2; pfam05226 1005048012272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048012273 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 1005048012274 dimer interface [polypeptide binding]; other site 1005048012275 phosphorylation site [posttranslational modification] 1005048012276 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 1005048012277 ATP binding site [chemical binding]; other site 1005048012278 Mg2+ binding site [ion binding]; other site 1005048012279 G-X-G motif; other site 1005048012280 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1005048012281 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1005048012282 tRNA; other site 1005048012283 putative tRNA binding site [nucleotide binding]; other site 1005048012284 putative NADP binding site [chemical binding]; other site 1005048012285 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1005048012286 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1005048012287 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1005048012288 RF-1 domain; Region: RF-1; pfam00472 1005048012289 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1005048012290 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1005048012291 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 1005048012292 S-adenosylmethionine binding site [chemical binding]; other site 1005048012293 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1005048012294 amphipathic channel; other site 1005048012295 Asn-Pro-Ala signature motifs; other site 1005048012296 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1005048012297 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1005048012298 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1005048012299 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 1005048012300 RNA binding site [nucleotide binding]; other site 1005048012301 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1005048012302 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1005048012303 substrate binding pocket [chemical binding]; other site 1005048012304 chain length determination region; other site 1005048012305 substrate-Mg2+ binding site; other site 1005048012306 catalytic residues [active] 1005048012307 aspartate-rich region 1; other site 1005048012308 active site lid residues [active] 1005048012309 aspartate-rich region 2; other site 1005048012310 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1005048012311 Domain of unknown function DUF21; Region: DUF21; pfam01595 1005048012312 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 1005048012313 Transporter associated domain; Region: CorC_HlyC; smart01091 1005048012314 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1005048012315 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1005048012316 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 1005048012317 Walker A motif; other site 1005048012318 ATP binding site [chemical binding]; other site 1005048012319 Walker B motif; other site 1005048012320 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1005048012321 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048012322 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048012323 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 1005048012324 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1005048012325 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1005048012326 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1005048012327 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 1005048012328 CoA-binding site [chemical binding]; other site 1005048012329 ATP-binding [chemical binding]; other site 1005048012330 hypothetical protein; Provisional; Region: PRK05287 1005048012331 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1005048012332 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 1005048012333 active site 1005048012334 8-oxo-dGMP binding site [chemical binding]; other site 1005048012335 nudix motif; other site 1005048012336 metal binding site [ion binding]; metal-binding site 1005048012337 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1005048012338 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 1005048012339 Walker A motif; other site 1005048012340 ATP binding site [chemical binding]; other site 1005048012341 Walker B motif; other site 1005048012342 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 1005048012343 heterotetramer interface [polypeptide binding]; other site 1005048012344 active site pocket [active] 1005048012345 cleavage site 1005048012346 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1005048012347 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1005048012348 SEC-C motif; Region: SEC-C; pfam02810 1005048012349 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1005048012350 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048012351 Protein of unknown function (DUF721); Region: DUF721; cl02324 1005048012352 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1005048012353 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1005048012354 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1005048012355 catalytic triad [active] 1005048012356 dimer interface [polypeptide binding]; other site 1005048012357 cell division protein FtsZ; Validated; Region: PRK09330 1005048012358 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 1005048012359 nucleotide binding site [chemical binding]; other site 1005048012360 SulA interaction site; other site 1005048012361 cell division protein FtsA; Region: ftsA; TIGR01174 1005048012362 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1005048012363 nucleotide binding site [chemical binding]; other site 1005048012364 Cell division protein FtsA; Region: FtsA; pfam14450 1005048012365 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1005048012366 Cell division protein FtsQ; Region: FtsQ; pfam03799 1005048012367 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1005048012368 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1005048012369 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005048012370 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1005048012371 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005048012372 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048012373 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048012374 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1005048012375 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 1005048012376 active site 1005048012377 homodimer interface [polypeptide binding]; other site 1005048012378 cell division protein FtsW; Region: ftsW; TIGR02614 1005048012379 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1005048012380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048012381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048012382 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1005048012383 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 1005048012384 Mg++ binding site [ion binding]; other site 1005048012385 putative catalytic motif [active] 1005048012386 putative substrate binding site [chemical binding]; other site 1005048012387 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1005048012388 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005048012389 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048012390 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048012391 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1005048012392 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1005048012393 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1005048012394 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1005048012395 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1005048012396 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1005048012397 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1005048012398 Cell division protein FtsL; Region: FtsL; pfam04999 1005048012399 MraW methylase family; Region: Methyltransf_5; cl17771 1005048012400 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1005048012401 cell division protein MraZ; Reviewed; Region: PRK00326 1005048012402 MraZ protein; Region: MraZ; pfam02381 1005048012403 MraZ protein; Region: MraZ; pfam02381 1005048012404 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 1005048012405 active site 1005048012406 putative DNA-binding cleft [nucleotide binding]; other site 1005048012407 dimer interface [polypeptide binding]; other site 1005048012408 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1005048012409 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 1005048012410 purine monophosphate binding site [chemical binding]; other site 1005048012411 dimer interface [polypeptide binding]; other site 1005048012412 putative catalytic residues [active] 1005048012413 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1005048012414 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1005048012415 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1005048012416 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1005048012417 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 1005048012418 FMN binding site [chemical binding]; other site 1005048012419 active site 1005048012420 catalytic residues [active] 1005048012421 substrate binding site [chemical binding]; other site 1005048012422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048012423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048012424 metal binding site [ion binding]; metal-binding site 1005048012425 active site 1005048012426 I-site; other site 1005048012427 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 1005048012428 catalytic core [active] 1005048012429 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1005048012430 substrate binding site [chemical binding]; other site 1005048012431 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 1005048012432 putative active site [active] 1005048012433 dimerization interface [polypeptide binding]; other site 1005048012434 putative tRNAtyr binding site [nucleotide binding]; other site 1005048012435 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1005048012436 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1005048012437 active site 1005048012438 HIGH motif; other site 1005048012439 dimer interface [polypeptide binding]; other site 1005048012440 KMSKS motif; other site 1005048012441 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 1005048012442 RNA binding surface [nucleotide binding]; other site 1005048012443 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1005048012444 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048012445 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1005048012446 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1005048012447 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1005048012448 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1005048012449 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1005048012450 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1005048012451 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1005048012452 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 1005048012453 23S rRNA interface [nucleotide binding]; other site 1005048012454 L3 interface [polypeptide binding]; other site 1005048012455 OsmC-like protein; Region: OsmC; cl00767 1005048012456 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1005048012457 diiron binding motif [ion binding]; other site 1005048012458 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1005048012459 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1005048012460 active site 1005048012461 SAM binding site [chemical binding]; other site 1005048012462 homodimer interface [polypeptide binding]; other site 1005048012463 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1005048012464 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1005048012465 Walker A/P-loop; other site 1005048012466 ATP binding site [chemical binding]; other site 1005048012467 Q-loop/lid; other site 1005048012468 ABC transporter signature motif; other site 1005048012469 Walker B; other site 1005048012470 D-loop; other site 1005048012471 H-loop/switch region; other site 1005048012472 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1005048012473 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 1005048012474 dimer interface [polypeptide binding]; other site 1005048012475 conserved gate region; other site 1005048012476 putative PBP binding loops; other site 1005048012477 ABC-ATPase subunit interface; other site 1005048012478 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1005048012479 NMT1-like family; Region: NMT1_2; pfam13379 1005048012480 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 1005048012481 active site 1005048012482 phosphorylation site [posttranslational modification] 1005048012483 intermolecular recognition site; other site 1005048012484 dimerization interface [polypeptide binding]; other site 1005048012485 ANTAR domain; Region: ANTAR; pfam03861 1005048012486 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 1005048012487 active site 1005048012488 substrate binding pocket [chemical binding]; other site 1005048012489 dimer interface [polypeptide binding]; other site 1005048012490 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1005048012491 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1005048012492 Walker A/P-loop; other site 1005048012493 ATP binding site [chemical binding]; other site 1005048012494 Q-loop/lid; other site 1005048012495 ABC transporter signature motif; other site 1005048012496 Walker B; other site 1005048012497 D-loop; other site 1005048012498 H-loop/switch region; other site 1005048012499 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 1005048012500 dimer interface [polypeptide binding]; other site 1005048012501 conserved gate region; other site 1005048012502 putative PBP binding loops; other site 1005048012503 ABC-ATPase subunit interface; other site 1005048012504 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1005048012505 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 1005048012506 dimer interface [polypeptide binding]; other site 1005048012507 conserved gate region; other site 1005048012508 putative PBP binding loops; other site 1005048012509 ABC-ATPase subunit interface; other site 1005048012510 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1005048012511 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 1005048012512 substrate binding pocket [chemical binding]; other site 1005048012513 membrane-bound complex binding site; other site 1005048012514 hinge residues; other site 1005048012515 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1005048012516 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 1005048012517 substrate binding pocket [chemical binding]; other site 1005048012518 membrane-bound complex binding site; other site 1005048012519 hinge residues; other site 1005048012520 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1005048012521 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1005048012522 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1005048012523 NAD(P) binding site [chemical binding]; other site 1005048012524 cell density-dependent motility repressor; Provisional; Region: PRK10082 1005048012525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048012526 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 1005048012527 dimerization interface [polypeptide binding]; other site 1005048012528 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1005048012529 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1005048012530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048012531 Walker A/P-loop; other site 1005048012532 ATP binding site [chemical binding]; other site 1005048012533 Q-loop/lid; other site 1005048012534 ABC transporter signature motif; other site 1005048012535 Walker B; other site 1005048012536 D-loop; other site 1005048012537 H-loop/switch region; other site 1005048012538 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 1005048012539 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1005048012540 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1005048012541 Bacterial transcriptional regulator; Region: IclR; pfam01614 1005048012542 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1005048012543 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1005048012544 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1005048012545 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1005048012546 active site 1005048012547 intersubunit interface [polypeptide binding]; other site 1005048012548 catalytic residue [active] 1005048012549 galactonate dehydratase; Provisional; Region: PRK14017 1005048012550 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1005048012551 putative active site pocket [active] 1005048012552 putative metal binding site [ion binding]; other site 1005048012553 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 1005048012554 D-galactonate transporter; Region: 2A0114; TIGR00893 1005048012555 putative substrate translocation pore; other site 1005048012556 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1005048012557 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1005048012558 acyl-activating enzyme (AAE) consensus motif; other site 1005048012559 putative AMP binding site [chemical binding]; other site 1005048012560 putative active site [active] 1005048012561 putative CoA binding site [chemical binding]; other site 1005048012562 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048012563 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1005048012564 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 1005048012565 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048012566 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048012567 acyl-activating enzyme (AAE) consensus motif; other site 1005048012568 active site 1005048012569 AMP binding site [chemical binding]; other site 1005048012570 CoA binding site [chemical binding]; other site 1005048012571 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1005048012572 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1005048012573 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 1005048012574 putative [4Fe-4S] binding site [ion binding]; other site 1005048012575 putative molybdopterin cofactor binding site [chemical binding]; other site 1005048012576 The MopB_CT_3 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_3; cd02786 1005048012577 putative molybdopterin cofactor binding site; other site 1005048012578 acetylornithine deacetylase; Provisional; Region: PRK07522 1005048012579 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1005048012580 metal binding site [ion binding]; metal-binding site 1005048012581 putative dimer interface [polypeptide binding]; other site 1005048012582 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1005048012583 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048012584 Walker A/P-loop; other site 1005048012585 ATP binding site [chemical binding]; other site 1005048012586 Q-loop/lid; other site 1005048012587 ABC transporter signature motif; other site 1005048012588 Walker B; other site 1005048012589 D-loop; other site 1005048012590 H-loop/switch region; other site 1005048012591 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1005048012592 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1005048012593 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1005048012594 Walker A/P-loop; other site 1005048012595 ATP binding site [chemical binding]; other site 1005048012596 Q-loop/lid; other site 1005048012597 ABC transporter signature motif; other site 1005048012598 Walker B; other site 1005048012599 D-loop; other site 1005048012600 H-loop/switch region; other site 1005048012601 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1005048012602 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1005048012603 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 1005048012604 dimer interface [polypeptide binding]; other site 1005048012605 conserved gate region; other site 1005048012606 putative PBP binding loops; other site 1005048012607 ABC-ATPase subunit interface; other site 1005048012608 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1005048012609 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 1005048012610 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1005048012611 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1005048012612 metal binding site [ion binding]; metal-binding site 1005048012613 putative dimer interface [polypeptide binding]; other site 1005048012614 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1005048012615 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1005048012616 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1005048012617 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 1005048012618 S-adenosylmethionine binding site [chemical binding]; other site 1005048012619 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1005048012620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048012621 active site 1005048012622 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1005048012623 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1005048012624 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1005048012625 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1005048012626 active site 1005048012627 nucleotide binding site [chemical binding]; other site 1005048012628 HIGH motif; other site 1005048012629 KMSKS motif; other site 1005048012630 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1005048012631 dinuclear metal binding motif [ion binding]; other site 1005048012632 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048012633 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1005048012634 putative ligand binding site [chemical binding]; other site 1005048012635 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1005048012636 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1005048012637 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 1005048012638 Ligand Binding Site [chemical binding]; other site 1005048012639 Peptidase family M48; Region: Peptidase_M48; cl12018 1005048012640 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1005048012641 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1005048012642 dimer interface [polypeptide binding]; other site 1005048012643 PYR/PP interface [polypeptide binding]; other site 1005048012644 TPP binding site [chemical binding]; other site 1005048012645 substrate binding site [chemical binding]; other site 1005048012646 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1005048012647 TPP-binding site [chemical binding]; other site 1005048012648 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1005048012649 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1005048012650 cofactor binding site; other site 1005048012651 metal binding site [ion binding]; metal-binding site 1005048012652 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048012653 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 1005048012654 putative DNA binding site [nucleotide binding]; other site 1005048012655 putative Zn2+ binding site [ion binding]; other site 1005048012656 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048012657 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1005048012658 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1005048012659 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1005048012660 active site 1005048012661 NTP binding site [chemical binding]; other site 1005048012662 metal binding triad [ion binding]; metal-binding site 1005048012663 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1005048012664 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1005048012665 Zn2+ binding site [ion binding]; other site 1005048012666 Mg2+ binding site [ion binding]; other site 1005048012667 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 1005048012668 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048012669 putative C-terminal domain interface [polypeptide binding]; other site 1005048012670 putative GSH binding site (G-site) [chemical binding]; other site 1005048012671 putative dimer interface [polypeptide binding]; other site 1005048012672 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1005048012673 putative N-terminal domain interface [polypeptide binding]; other site 1005048012674 putative dimer interface [polypeptide binding]; other site 1005048012675 putative substrate binding pocket (H-site) [chemical binding]; other site 1005048012676 lytic murein transglycosylase; Provisional; Region: PRK11619 1005048012677 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 1005048012678 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048012679 catalytic residue [active] 1005048012680 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1005048012681 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1005048012682 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 1005048012683 FAD binding site [chemical binding]; other site 1005048012684 Membrane protein of unknown function; Region: DUF360; pfam04020 1005048012685 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1005048012686 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1005048012687 homotetramer interface [polypeptide binding]; other site 1005048012688 ligand binding site [chemical binding]; other site 1005048012689 catalytic site [active] 1005048012690 NAD binding site [chemical binding]; other site 1005048012691 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1005048012692 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1005048012693 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1005048012694 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1005048012695 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1005048012696 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1005048012697 putative acyl-acceptor binding pocket; other site 1005048012698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1005048012699 putative acyl-acceptor binding pocket; other site 1005048012700 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1005048012701 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1005048012702 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1005048012703 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1005048012704 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048012705 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 1005048012706 trimer interface [polypeptide binding]; other site 1005048012707 eyelet of channel; other site 1005048012708 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048012709 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 1005048012710 eyelet of channel; other site 1005048012711 trimer interface [polypeptide binding]; other site 1005048012712 Protein of unknown function, DUF484; Region: DUF484; cl17449 1005048012713 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1005048012714 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 1005048012715 active site 1005048012716 DNA binding site [nucleotide binding] 1005048012717 Int/Topo IB signature motif; other site 1005048012718 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 1005048012719 metal binding site 2 [ion binding]; metal-binding site 1005048012720 putative DNA binding helix; other site 1005048012721 metal binding site 1 [ion binding]; metal-binding site 1005048012722 structural Zn2+ binding site [ion binding]; other site 1005048012723 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1005048012724 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1005048012725 P-loop, Walker A motif; other site 1005048012726 Base recognition motif; other site 1005048012727 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1005048012728 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1005048012729 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1005048012730 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 1005048012731 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 1005048012732 anti sigma factor interaction site; other site 1005048012733 regulatory phosphorylation site [posttranslational modification]; other site 1005048012734 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 1005048012735 active site 1005048012736 HslU subunit interaction site [polypeptide binding]; other site 1005048012737 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1005048012738 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 1005048012739 Walker A motif; other site 1005048012740 ATP binding site [chemical binding]; other site 1005048012741 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 1005048012742 Walker B motif; other site 1005048012743 arginine finger; other site 1005048012744 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1005048012745 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1005048012746 type II secretion system protein F; Region: GspF; TIGR02120 1005048012747 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048012748 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1005048012749 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1005048012750 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 1005048012751 Walker A motif; other site 1005048012752 ATP binding site [chemical binding]; other site 1005048012753 Walker B motif; other site 1005048012754 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048012755 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048012756 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048012757 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1005048012758 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005048012759 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1005048012760 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1005048012761 GspL periplasmic domain; Region: GspL_C; cl14909 1005048012762 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1005048012763 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1005048012764 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1005048012765 type II secretion system protein I; Region: gspI; TIGR01707 1005048012766 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1005048012767 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1005048012768 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1005048012769 Type II transport protein GspH; Region: GspH; pfam12019 1005048012770 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1005048012771 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1005048012772 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1005048012773 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1005048012774 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1005048012775 Bacterial SH3 domain; Region: SH3_4; pfam06347 1005048012776 Bacterial SH3 domain; Region: SH3_4; pfam06347 1005048012777 preprotein translocase subunit SecB; Validated; Region: PRK05751 1005048012778 SecA binding site; other site 1005048012779 Preprotein binding site; other site 1005048012780 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1005048012781 GSH binding site [chemical binding]; other site 1005048012782 catalytic residues [active] 1005048012783 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 1005048012784 active site residue [active] 1005048012785 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 1005048012786 catalytic core [active] 1005048012787 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 1005048012788 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1005048012789 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1005048012790 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048012791 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1005048012792 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1005048012793 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 1005048012794 protein binding site [polypeptide binding]; other site 1005048012795 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1005048012796 Catalytic dyad [active] 1005048012797 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1005048012798 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 1005048012799 ATP binding site [chemical binding]; other site 1005048012800 substrate interface [chemical binding]; other site 1005048012801 PhoD-like phosphatase; Region: PhoD; pfam09423 1005048012802 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1005048012803 putative active site [active] 1005048012804 putative metal binding site [ion binding]; other site 1005048012805 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1005048012806 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1005048012807 active site 1005048012808 homopentamer interface [polypeptide binding]; other site 1005048012809 dimer interface [polypeptide binding]; other site 1005048012810 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048012811 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048012812 Walker A/P-loop; other site 1005048012813 ATP binding site [chemical binding]; other site 1005048012814 Q-loop/lid; other site 1005048012815 ABC transporter signature motif; other site 1005048012816 Walker B; other site 1005048012817 D-loop; other site 1005048012818 H-loop/switch region; other site 1005048012819 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048012820 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 1005048012821 TM-ABC transporter signature motif; other site 1005048012822 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048012823 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048012824 Walker A/P-loop; other site 1005048012825 ATP binding site [chemical binding]; other site 1005048012826 Q-loop/lid; other site 1005048012827 ABC transporter signature motif; other site 1005048012828 Walker B; other site 1005048012829 D-loop; other site 1005048012830 H-loop/switch region; other site 1005048012831 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 1005048012832 TM-ABC transporter signature motif; other site 1005048012833 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048012834 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 1005048012835 putative ligand binding site [chemical binding]; other site 1005048012836 division inhibitor protein; Provisional; Region: slmA; PRK09480 1005048012837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1005048012838 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1005048012839 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1005048012840 TraB family; Region: TraB; pfam01963 1005048012841 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1005048012842 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 1005048012843 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048012844 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1005048012845 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1005048012846 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1005048012847 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1005048012848 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1005048012849 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048012850 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 1005048012851 N-terminal plug; other site 1005048012852 ligand-binding site [chemical binding]; other site 1005048012853 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1005048012854 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1005048012855 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1005048012856 putative active site [active] 1005048012857 putative metal binding site [ion binding]; other site 1005048012858 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1005048012859 Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_1; cd09106 1005048012860 PLD-like domain; Region: PLDc_2; pfam13091 1005048012861 putative active site [active] 1005048012862 putative catalytic site [active] 1005048012863 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 1005048012864 PLD-like domain; Region: PLDc_2; pfam13091 1005048012865 putative active site [active] 1005048012866 putative catalytic site [active] 1005048012867 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 1005048012868 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1005048012869 putative active site [active] 1005048012870 metal binding site [ion binding]; metal-binding site 1005048012871 Predicted membrane protein [Function unknown]; Region: COG2259 1005048012872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048012873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048012874 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 1005048012875 putative effector binding pocket; other site 1005048012876 dimerization interface [polypeptide binding]; other site 1005048012877 Phasin protein; Region: Phasin_2; pfam09361 1005048012878 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1005048012879 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1005048012880 nucleophile elbow; other site 1005048012881 Patatin phospholipase; Region: DUF3734; pfam12536 1005048012882 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1005048012883 HicB family; Region: HicB; pfam05534 1005048012884 B12 binding domain; Region: B12-binding; pfam02310 1005048012885 B12 binding site [chemical binding]; other site 1005048012886 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 1005048012887 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 1005048012888 FeS/SAM binding site; other site 1005048012889 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 1005048012890 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 1005048012891 D-ribose pyranase; Provisional; Region: PRK11797 1005048012892 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048012893 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1005048012894 substrate binding site [chemical binding]; other site 1005048012895 dimer interface [polypeptide binding]; other site 1005048012896 ATP binding site [chemical binding]; other site 1005048012897 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048012898 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048012899 DNA binding site [nucleotide binding] 1005048012900 domain linker motif; other site 1005048012901 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048012902 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1005048012903 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048012904 TM-ABC transporter signature motif; other site 1005048012905 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1005048012906 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1005048012907 Walker A/P-loop; other site 1005048012908 ATP binding site [chemical binding]; other site 1005048012909 Q-loop/lid; other site 1005048012910 ABC transporter signature motif; other site 1005048012911 Walker B; other site 1005048012912 D-loop; other site 1005048012913 H-loop/switch region; other site 1005048012914 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1005048012915 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1005048012916 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1005048012917 ligand binding site [chemical binding]; other site 1005048012918 aspartate aminotransferase; Provisional; Region: PRK06108 1005048012919 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 1005048012920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048012921 homodimer interface [polypeptide binding]; other site 1005048012922 catalytic residue [active] 1005048012923 DNA topoisomerase III; Validated; Region: PRK08173 1005048012924 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 1005048012925 active site 1005048012926 putative interdomain interaction site [polypeptide binding]; other site 1005048012927 putative metal-binding site [ion binding]; other site 1005048012928 putative nucleotide binding site [chemical binding]; other site 1005048012929 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 1005048012930 domain I; other site 1005048012931 DNA binding groove [nucleotide binding] 1005048012932 phosphate binding site [ion binding]; other site 1005048012933 domain II; other site 1005048012934 domain III; other site 1005048012935 nucleotide binding site [chemical binding]; other site 1005048012936 catalytic site [active] 1005048012937 domain IV; other site 1005048012938 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1005048012939 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1005048012940 Protein of unknown function (DUF494); Region: DUF494; pfam04361 1005048012941 DNA protecting protein DprA; Region: dprA; TIGR00732 1005048012942 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1005048012943 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1005048012944 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1005048012945 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1005048012946 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 1005048012947 active site 1005048012948 catalytic residues [active] 1005048012949 metal binding site [ion binding]; metal-binding site 1005048012950 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1005048012951 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1005048012952 putative active site [active] 1005048012953 substrate binding site [chemical binding]; other site 1005048012954 putative cosubstrate binding site; other site 1005048012955 catalytic site [active] 1005048012956 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1005048012957 substrate binding site [chemical binding]; other site 1005048012958 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1005048012959 active site 1005048012960 phosphate binding residues; other site 1005048012961 catalytic residues [active] 1005048012962 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 1005048012963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048012964 Coenzyme A binding pocket [chemical binding]; other site 1005048012965 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1005048012966 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 1005048012967 dimer interface [polypeptide binding]; other site 1005048012968 conserved gate region; other site 1005048012969 putative PBP binding loops; other site 1005048012970 ABC-ATPase subunit interface; other site 1005048012971 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1005048012972 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1005048012973 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1005048012974 Walker A/P-loop; other site 1005048012975 ATP binding site [chemical binding]; other site 1005048012976 Q-loop/lid; other site 1005048012977 ABC transporter signature motif; other site 1005048012978 Walker B; other site 1005048012979 D-loop; other site 1005048012980 H-loop/switch region; other site 1005048012981 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1005048012982 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1005048012983 Sporulation related domain; Region: SPOR; pfam05036 1005048012984 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1005048012985 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1005048012986 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1005048012987 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1005048012988 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1005048012989 rod shape-determining protein MreC; Provisional; Region: PRK13922 1005048012990 rod shape-determining protein MreC; Region: MreC; pfam04085 1005048012991 rod shape-determining protein MreB; Provisional; Region: PRK13927 1005048012992 MreB and similar proteins; Region: MreB_like; cd10225 1005048012993 nucleotide binding site [chemical binding]; other site 1005048012994 Mg binding site [ion binding]; other site 1005048012995 putative protofilament interaction site [polypeptide binding]; other site 1005048012996 RodZ interaction site [polypeptide binding]; other site 1005048012997 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1005048012998 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1005048012999 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1005048013000 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1005048013001 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1005048013002 GatB domain; Region: GatB_Yqey; smart00845 1005048013003 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1005048013004 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1005048013005 active site 1005048013006 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1005048013007 putative active site [active] 1005048013008 putative catalytic site [active] 1005048013009 putative DNA binding site [nucleotide binding]; other site 1005048013010 putative phosphate binding site [ion binding]; other site 1005048013011 metal binding site A [ion binding]; metal-binding site 1005048013012 putative AP binding site [nucleotide binding]; other site 1005048013013 putative metal binding site B [ion binding]; other site 1005048013014 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1005048013015 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 1005048013016 putative active site [active] 1005048013017 putative dimer interface [polypeptide binding]; other site 1005048013018 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1005048013019 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 1005048013020 ligand binding site [chemical binding]; other site 1005048013021 transcriptional regulator; Provisional; Region: PRK10632 1005048013022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013023 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 1005048013024 putative effector binding pocket; other site 1005048013025 dimerization interface [polypeptide binding]; other site 1005048013026 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1005048013027 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 1005048013028 catalytic loop [active] 1005048013029 iron binding site [ion binding]; other site 1005048013030 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 1005048013031 Isochorismatase family; Region: Isochorismatase; pfam00857 1005048013032 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1005048013033 catalytic triad [active] 1005048013034 conserved cis-peptide bond; other site 1005048013035 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1005048013036 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1005048013037 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 1005048013038 putative DNA binding site [nucleotide binding]; other site 1005048013039 putative Zn2+ binding site [ion binding]; other site 1005048013040 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048013041 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 1005048013042 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 1005048013043 inhibitor-cofactor binding pocket; inhibition site 1005048013044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013045 catalytic residue [active] 1005048013046 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 1005048013047 Amidinotransferase; Region: Amidinotransf; cl12043 1005048013048 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1005048013049 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1005048013050 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 1005048013051 substrate binding pocket [chemical binding]; other site 1005048013052 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 1005048013053 B12 binding site [chemical binding]; other site 1005048013054 cobalt ligand [ion binding]; other site 1005048013055 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1005048013056 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 1005048013057 active site 1005048013058 oxyanion hole [active] 1005048013059 putative transposase OrfB; Reviewed; Region: PHA02517 1005048013060 Integrase core domain; Region: rve; pfam00665 1005048013061 Integrase core domain; Region: rve_3; pfam13683 1005048013062 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1005048013063 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1005048013064 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1005048013065 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1005048013066 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1005048013067 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1005048013068 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1005048013069 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1005048013070 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1005048013071 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1005048013072 guanine deaminase; Provisional; Region: PRK09228 1005048013073 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1005048013074 active site 1005048013075 SpoVR family protein; Provisional; Region: PRK11767 1005048013076 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1005048013077 hypothetical protein; Provisional; Region: PRK05325 1005048013078 PrkA family serine protein kinase; Provisional; Region: PRK15455 1005048013079 AAA ATPase domain; Region: AAA_16; pfam13191 1005048013080 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1005048013081 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1005048013082 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 1005048013083 putative substrate translocation pore; other site 1005048013084 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1005048013085 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 1005048013086 S-adenosylmethionine binding site [chemical binding]; other site 1005048013087 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1005048013088 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1005048013089 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1005048013090 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1005048013091 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1005048013092 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1005048013093 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 1005048013094 dimerization domain swap beta strand [polypeptide binding]; other site 1005048013095 regulatory protein interface [polypeptide binding]; other site 1005048013096 active site 1005048013097 regulatory phosphorylation site [posttranslational modification]; other site 1005048013098 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1005048013099 active pocket/dimerization site; other site 1005048013100 active site 1005048013101 phosphorylation site [posttranslational modification] 1005048013102 glutathione synthetase; Provisional; Region: PRK05246 1005048013103 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1005048013104 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1005048013105 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 1005048013106 Glutamate-cysteine ligase; Region: GshA; pfam08886 1005048013107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048013108 Coenzyme A binding pocket [chemical binding]; other site 1005048013109 ammonium transporter; Provisional; Region: PRK10666 1005048013110 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1005048013111 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1005048013112 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 1005048013113 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1005048013114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1005048013115 Coenzyme A binding pocket [chemical binding]; other site 1005048013116 Membrane fusogenic activity; Region: BMFP; pfam04380 1005048013117 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1005048013118 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1005048013119 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 1005048013120 Walker A motif; other site 1005048013121 ATP binding site [chemical binding]; other site 1005048013122 Walker B motif; other site 1005048013123 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1005048013124 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1005048013125 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1005048013126 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 1005048013127 Putative methyltransferase; Region: Methyltransf_4; cl17290 1005048013128 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1005048013129 potassium uptake protein; Region: kup; TIGR00794 1005048013130 Predicted methyltransferases [General function prediction only]; Region: COG0313 1005048013131 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1005048013132 putative SAM binding site [chemical binding]; other site 1005048013133 putative homodimer interface [polypeptide binding]; other site 1005048013134 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1005048013135 hypothetical protein; Provisional; Region: PRK14673 1005048013136 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 1005048013137 dimer interface [polypeptide binding]; other site 1005048013138 active site 1005048013139 outer membrane lipoprotein; Provisional; Region: PRK11023 1005048013140 BON domain; Region: BON; pfam04972 1005048013141 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1005048013142 Peptidase family M48; Region: Peptidase_M48; cl12018 1005048013143 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 1005048013144 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1005048013145 catalytic residues [active] 1005048013146 MarR family; Region: MarR_2; cl17246 1005048013147 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1005048013148 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1005048013149 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1005048013150 LamB/YcsF family protein; Provisional; Region: PRK05406 1005048013151 Protein of unknown function (DUF969); Region: DUF969; pfam06149 1005048013152 Predicted membrane protein [Function unknown]; Region: COG3817 1005048013153 Protein of unknown function (DUF979); Region: DUF979; pfam06166 1005048013154 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1005048013155 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 1005048013156 putative substrate binding pocket [chemical binding]; other site 1005048013157 AC domain interface; other site 1005048013158 catalytic triad [active] 1005048013159 AB domain interface; other site 1005048013160 interchain disulfide; other site 1005048013161 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1005048013162 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1005048013163 gamma subunit interface [polypeptide binding]; other site 1005048013164 epsilon subunit interface [polypeptide binding]; other site 1005048013165 LBP interface [polypeptide binding]; other site 1005048013166 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1005048013167 Bacterial SH3 domain; Region: SH3_3; pfam08239 1005048013168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013170 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1005048013171 putative effector binding pocket; other site 1005048013172 putative dimerization interface [polypeptide binding]; other site 1005048013173 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 1005048013174 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1005048013175 active site 1005048013176 catalytic tetrad [active] 1005048013177 lipoyl synthase; Provisional; Region: PRK05481 1005048013178 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 1005048013179 FeS/SAM binding site; other site 1005048013180 lipoate-protein ligase B; Provisional; Region: PRK14343 1005048013181 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1005048013182 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1005048013183 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1005048013184 N-terminal domain interface [polypeptide binding]; other site 1005048013185 dimer interface [polypeptide binding]; other site 1005048013186 substrate binding pocket (H-site) [chemical binding]; other site 1005048013187 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 1005048013188 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1005048013189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013190 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1005048013191 dimerization interface [polypeptide binding]; other site 1005048013192 substrate binding pocket [chemical binding]; other site 1005048013193 Protein of unknown function (DUF493); Region: DUF493; cl01102 1005048013194 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1005048013195 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1005048013196 homodimer interface [polypeptide binding]; other site 1005048013197 substrate-cofactor binding pocket; other site 1005048013198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013199 catalytic residue [active] 1005048013200 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1005048013201 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1005048013202 active site 1005048013203 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1005048013204 putative active site [active] 1005048013205 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1005048013206 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 1005048013207 RNA binding surface [nucleotide binding]; other site 1005048013208 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1005048013209 active site 1005048013210 uracil binding [chemical binding]; other site 1005048013211 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 1005048013212 feedback inhibition sensing region; other site 1005048013213 homohexameric interface [polypeptide binding]; other site 1005048013214 nucleotide binding site [chemical binding]; other site 1005048013215 N-acetyl-L-glutamate binding site [chemical binding]; other site 1005048013216 Sporulation related domain; Region: SPOR; pfam05036 1005048013217 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1005048013218 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1005048013219 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1005048013220 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1005048013221 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1005048013222 Permease; Region: Permease; pfam02405 1005048013223 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1005048013224 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048013225 Walker A/P-loop; other site 1005048013226 ATP binding site [chemical binding]; other site 1005048013227 Q-loop/lid; other site 1005048013228 ABC transporter signature motif; other site 1005048013229 Walker B; other site 1005048013230 D-loop; other site 1005048013231 H-loop/switch region; other site 1005048013232 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1005048013233 mce related protein; Region: MCE; pfam02470 1005048013234 Protein of unknown function (DUF330); Region: DUF330; cl01135 1005048013235 Predicted integral membrane protein [Function unknown]; Region: COG5652 1005048013236 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 1005048013237 dimer interface [polypeptide binding]; other site 1005048013238 [2Fe-2S] cluster binding site [ion binding]; other site 1005048013239 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1005048013240 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1005048013241 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1005048013242 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1005048013243 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1005048013244 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1005048013245 putative chaperone; Provisional; Region: PRK11678 1005048013246 nucleotide binding site [chemical binding]; other site 1005048013247 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1005048013248 SBD interface [polypeptide binding]; other site 1005048013249 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 1005048013250 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1005048013251 putative Cl- selectivity filter; other site 1005048013252 putative pore gating glutamate residue; other site 1005048013253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013255 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 1005048013256 dimerization interface [polypeptide binding]; other site 1005048013257 Predicted membrane protein [Function unknown]; Region: COG2259 1005048013258 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1005048013259 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1005048013260 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1005048013261 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1005048013262 putative DNA binding site [nucleotide binding]; other site 1005048013263 putative Zn2+ binding site [ion binding]; other site 1005048013264 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048013265 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1005048013266 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1005048013267 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1005048013268 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1005048013269 active site 1005048013270 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1005048013271 dimer interface [polypeptide binding]; other site 1005048013272 substrate binding site [chemical binding]; other site 1005048013273 catalytic residues [active] 1005048013274 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 1005048013275 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1005048013276 metal binding site [ion binding]; metal-binding site 1005048013277 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1005048013278 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 1005048013279 putative substrate translocation pore; other site 1005048013280 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_IV; cd01994 1005048013281 Ligand Binding Site [chemical binding]; other site 1005048013282 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1005048013283 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1005048013284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048013285 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048013286 ABC transporter; Region: ABC_tran_2; pfam12848 1005048013287 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1005048013288 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 1005048013289 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1005048013290 active site 1005048013291 homodimer interface [polypeptide binding]; other site 1005048013292 homotetramer interface [polypeptide binding]; other site 1005048013293 mechanosensitive channel MscS; Provisional; Region: PRK10334 1005048013294 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1005048013295 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1005048013296 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 1005048013297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013298 homodimer interface [polypeptide binding]; other site 1005048013299 catalytic residue [active] 1005048013300 META domain; Region: META; pfam03724 1005048013301 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 1005048013302 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048013303 TAP-like protein; Region: Abhydrolase_4; pfam08386 1005048013304 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1005048013305 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 1005048013306 FMN binding site [chemical binding]; other site 1005048013307 substrate binding site [chemical binding]; other site 1005048013308 putative catalytic residue [active] 1005048013309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1005048013310 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1005048013311 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1005048013312 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 1005048013313 active site 1005048013314 phosphorylation site [posttranslational modification] 1005048013315 intermolecular recognition site; other site 1005048013316 dimerization interface [polypeptide binding]; other site 1005048013317 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 1005048013318 DNA binding site [nucleotide binding] 1005048013319 sensory histidine kinase CreC; Provisional; Region: PRK11100 1005048013320 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 1005048013321 dimerization interface [polypeptide binding]; other site 1005048013322 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 1005048013323 dimer interface [polypeptide binding]; other site 1005048013324 phosphorylation site [posttranslational modification] 1005048013325 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 1005048013326 ATP binding site [chemical binding]; other site 1005048013327 Mg2+ binding site [ion binding]; other site 1005048013328 G-X-G motif; other site 1005048013329 inner membrane protein; Provisional; Region: PRK11715 1005048013330 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1005048013331 putative deacylase active site [active] 1005048013332 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 1005048013333 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048013334 substrate binding pocket [chemical binding]; other site 1005048013335 membrane-bound complex binding site; other site 1005048013336 hinge residues; other site 1005048013337 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1005048013338 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1005048013339 active site 1005048013340 catalytic residues [active] 1005048013341 metal binding site [ion binding]; metal-binding site 1005048013342 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1005048013343 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1005048013344 putative ligand binding site [chemical binding]; other site 1005048013345 NAD binding site [chemical binding]; other site 1005048013346 dimerization interface [polypeptide binding]; other site 1005048013347 catalytic site [active] 1005048013348 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1005048013349 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1005048013350 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1005048013351 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1005048013352 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 1005048013353 carboxyltransferase (CT) interaction site; other site 1005048013354 biotinylation site [posttranslational modification]; other site 1005048013355 biotin synthase; Region: bioB; TIGR00433 1005048013356 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 1005048013357 FeS/SAM binding site; other site 1005048013358 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1005048013359 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1005048013360 AAA domain; Region: AAA_26; pfam13500 1005048013361 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 1005048013362 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 1005048013363 inhibitor-cofactor binding pocket; inhibition site 1005048013364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013365 catalytic residue [active] 1005048013366 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1005048013367 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 1005048013368 substrate-cofactor binding pocket; other site 1005048013369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013370 catalytic residue [active] 1005048013371 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1005048013372 Cytochrome P450; Region: p450; cl12078 1005048013373 enoyl-CoA hydratase; Provisional; Region: PRK05995 1005048013374 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 1005048013375 substrate binding site [chemical binding]; other site 1005048013376 oxyanion hole (OAH) forming residues; other site 1005048013377 trimer interface [polypeptide binding]; other site 1005048013378 DinB family; Region: DinB; cl17821 1005048013379 DinB superfamily; Region: DinB_2; pfam12867 1005048013380 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1005048013381 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1005048013382 catalytic site [active] 1005048013383 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1005048013384 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1005048013385 AMP-binding domain protein; Validated; Region: PRK08315 1005048013386 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1005048013387 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1005048013388 acyl-activating enzyme (AAE) consensus motif; other site 1005048013389 acyl-activating enzyme (AAE) consensus motif; other site 1005048013390 putative AMP binding site [chemical binding]; other site 1005048013391 putative active site [active] 1005048013392 putative CoA binding site [chemical binding]; other site 1005048013393 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1005048013394 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 1005048013395 putative catalytic residue [active] 1005048013396 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1005048013397 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 1005048013398 dimer interface [polypeptide binding]; other site 1005048013399 active site 1005048013400 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1005048013401 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1005048013402 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 1005048013403 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1005048013404 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1005048013405 catalytic residue [active] 1005048013406 isovaleryl-CoA dehydrogenase; Region: PLN02519 1005048013407 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1005048013408 substrate binding site [chemical binding]; other site 1005048013409 FAD binding site [chemical binding]; other site 1005048013410 catalytic base [active] 1005048013411 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1005048013412 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1005048013413 DNA binding residues [nucleotide binding] 1005048013414 putative dimer interface [polypeptide binding]; other site 1005048013415 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1005048013416 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1005048013417 short chain dehydrogenase; Provisional; Region: PRK07024 1005048013418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1005048013419 NAD(P) binding site [chemical binding]; other site 1005048013420 active site 1005048013421 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 1005048013422 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1005048013423 catalytic residues [active] 1005048013424 hinge region; other site 1005048013425 alpha helical domain; other site 1005048013426 Sporulation related domain; Region: SPOR; pfam05036 1005048013427 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1005048013428 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1005048013429 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1005048013430 active site 1005048013431 HIGH motif; other site 1005048013432 KMSK motif region; other site 1005048013433 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1005048013434 tRNA binding surface [nucleotide binding]; other site 1005048013435 anticodon binding site; other site 1005048013436 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 1005048013437 putative FMN binding site [chemical binding]; other site 1005048013438 Peptidase family M23; Region: Peptidase_M23; pfam01551 1005048013439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 1005048013440 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1005048013441 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1005048013442 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1005048013443 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1005048013444 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1005048013445 EamA-like transporter family; Region: EamA; pfam00892 1005048013446 EamA-like transporter family; Region: EamA; pfam00892 1005048013447 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1005048013448 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 1005048013449 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1005048013450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048013451 DNA-binding site [nucleotide binding]; DNA binding site 1005048013452 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1005048013453 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1005048013454 carbon starvation protein A; Provisional; Region: PRK15015 1005048013455 Carbon starvation protein CstA; Region: CstA; pfam02554 1005048013456 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1005048013457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 1005048013458 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 1005048013459 Histidine kinase; Region: HisKA_3; pfam07730 1005048013460 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 1005048013461 ATP binding site [chemical binding]; other site 1005048013462 Mg2+ binding site [ion binding]; other site 1005048013463 G-X-G motif; other site 1005048013464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048013465 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 1005048013466 active site 1005048013467 phosphorylation site [posttranslational modification] 1005048013468 intermolecular recognition site; other site 1005048013469 dimerization interface [polypeptide binding]; other site 1005048013470 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 1005048013471 DNA binding residues [nucleotide binding] 1005048013472 dimerization interface [polypeptide binding]; other site 1005048013473 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 1005048013474 putative hydrophobic ligand binding site [chemical binding]; other site 1005048013475 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1005048013476 Part of AAA domain; Region: AAA_19; pfam13245 1005048013477 Family description; Region: UvrD_C_2; pfam13538 1005048013478 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1005048013479 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1005048013480 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1005048013481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1005048013482 metal binding site [ion binding]; metal-binding site 1005048013483 active site 1005048013484 I-site; other site 1005048013485 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1005048013486 Predicted membrane protein [Function unknown]; Region: COG5393 1005048013487 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1005048013488 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1005048013489 ligand binding site [chemical binding]; other site 1005048013490 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1005048013491 Predicted transcriptional regulators [Transcription]; Region: COG1733 1005048013492 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1005048013493 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 1005048013494 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 1005048013495 dimerization interface [polypeptide binding]; other site 1005048013496 active site 1005048013497 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1005048013498 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1005048013499 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1005048013500 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1005048013501 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1005048013502 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1005048013503 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1005048013504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1005048013505 Histidine kinase; Region: HisKA_3; pfam07730 1005048013506 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 1005048013507 ATP binding site [chemical binding]; other site 1005048013508 Mg2+ binding site [ion binding]; other site 1005048013509 G-X-G motif; other site 1005048013510 Tir chaperone protein (CesT) family; Region: CesT; pfam05932 1005048013511 Oligosaccharyltransferase subunit Ribophorin II; Region: Ribophorin_II; pfam05817 1005048013512 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1005048013513 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 1005048013514 active site 1005048013515 phosphorylation site [posttranslational modification] 1005048013516 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 1005048013517 DNA binding site [nucleotide binding] 1005048013518 SET domain; Region: SET; pfam00856 1005048013519 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1005048013520 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 1005048013521 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1005048013522 catalytic residue [active] 1005048013523 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1005048013524 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1005048013525 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 1005048013526 DNA binding residues [nucleotide binding] 1005048013527 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1005048013528 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 1005048013529 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1005048013530 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1005048013531 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1005048013532 substrate binding site [chemical binding]; other site 1005048013533 ATP binding site [chemical binding]; other site 1005048013534 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 1005048013535 active site 1005048013536 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1005048013537 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1005048013538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048013539 DNA-binding site [nucleotide binding]; DNA binding site 1005048013540 UTRA domain; Region: UTRA; pfam07702 1005048013541 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 1005048013542 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048013543 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1005048013544 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1005048013545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1005048013546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048013547 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 1005048013548 type III secretion system ATPase; Provisional; Region: PRK09099 1005048013549 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1005048013550 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 1005048013551 Walker A motif/ATP binding site; other site 1005048013552 Walker B motif; other site 1005048013553 type III secretion system protein HrpB; Validated; Region: PRK09098 1005048013554 Flagellar assembly protein FliH; Region: FliH; pfam02108 1005048013555 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 1005048013556 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1005048013557 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 1005048013558 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 1005048013559 type III secretion system protein HrcU; Validated; Region: PRK09108 1005048013560 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1005048013561 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1005048013562 FHIPEP family; Region: FHIPEP; pfam00771 1005048013563 Type III secretion protein (HpaP); Region: HpaP; cl17849 1005048013564 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 1005048013565 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1005048013566 type III secretion system protein YscR; Provisional; Region: PRK12797 1005048013567 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 1005048013568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013570 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 1005048013571 dimerization interface [polypeptide binding]; other site 1005048013572 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 1005048013573 metabolite-proton symporter; Region: 2A0106; TIGR00883 1005048013574 putative substrate translocation pore; other site 1005048013575 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 1005048013576 putative active site [active] 1005048013577 Zn binding site [ion binding]; other site 1005048013578 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1005048013579 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 1005048013580 putative ligand binding site [chemical binding]; other site 1005048013581 PBP superfamily domain; Region: PBP_like_2; cl17296 1005048013582 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1005048013583 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1005048013584 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048013585 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1005048013586 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1005048013587 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1005048013588 minor groove reading motif; other site 1005048013589 helix-hairpin-helix signature motif; other site 1005048013590 substrate binding pocket [chemical binding]; other site 1005048013591 active site 1005048013592 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1005048013593 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1005048013594 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1005048013595 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 1005048013596 active site 1005048013597 phosphorylation site [posttranslational modification] 1005048013598 intermolecular recognition site; other site 1005048013599 dimerization interface [polypeptide binding]; other site 1005048013600 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 1005048013601 DNA binding residues [nucleotide binding] 1005048013602 dimerization interface [polypeptide binding]; other site 1005048013603 transcriptional regulator RcsB; Provisional; Region: PRK10840 1005048013604 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 1005048013605 active site 1005048013606 phosphorylation site [posttranslational modification] 1005048013607 intermolecular recognition site; other site 1005048013608 dimerization interface [polypeptide binding]; other site 1005048013609 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 1005048013610 DNA binding residues [nucleotide binding] 1005048013611 dimerization interface [polypeptide binding]; other site 1005048013612 Domain of unknown function (DUF718); Region: DUF718; pfam05336 1005048013613 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1005048013614 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048013615 DNA-binding site [nucleotide binding]; DNA binding site 1005048013616 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1005048013617 primosome assembly protein PriA; Validated; Region: PRK05580 1005048013618 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 1005048013619 ATP binding site [chemical binding]; other site 1005048013620 putative Mg++ binding site [ion binding]; other site 1005048013621 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1005048013622 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1005048013623 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 1005048013624 substrate binding site [chemical binding]; other site 1005048013625 active site 1005048013626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013628 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 1005048013629 dimerization interface [polypeptide binding]; other site 1005048013630 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1005048013631 agmatinase; Region: agmatinase; TIGR01230 1005048013632 oligomer interface [polypeptide binding]; other site 1005048013633 putative active site [active] 1005048013634 Mn binding site [ion binding]; other site 1005048013635 Helix-turn-helix domain; Region: HTH_18; pfam12833 1005048013636 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1005048013637 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1005048013638 MFS transport protein AraJ; Provisional; Region: PRK10091 1005048013639 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 1005048013640 putative substrate translocation pore; other site 1005048013641 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1005048013642 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1005048013643 tetramerization interface [polypeptide binding]; other site 1005048013644 NAD(P) binding site [chemical binding]; other site 1005048013645 catalytic residues [active] 1005048013646 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1005048013647 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 1005048013648 dimer interface [polypeptide binding]; other site 1005048013649 conserved gate region; other site 1005048013650 putative PBP binding loops; other site 1005048013651 ABC-ATPase subunit interface; other site 1005048013652 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 1005048013653 dimer interface [polypeptide binding]; other site 1005048013654 conserved gate region; other site 1005048013655 putative PBP binding loops; other site 1005048013656 ABC-ATPase subunit interface; other site 1005048013657 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1005048013658 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1005048013659 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005048013660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048013661 Walker A/P-loop; other site 1005048013662 ATP binding site [chemical binding]; other site 1005048013663 Q-loop/lid; other site 1005048013664 ABC transporter signature motif; other site 1005048013665 Walker B; other site 1005048013666 D-loop; other site 1005048013667 H-loop/switch region; other site 1005048013668 TOBE domain; Region: TOBE_2; pfam08402 1005048013669 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 1005048013670 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 1005048013671 inhibitor-cofactor binding pocket; inhibition site 1005048013672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013673 catalytic residue [active] 1005048013674 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 1005048013675 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1005048013676 DNA-binding site [nucleotide binding]; DNA binding site 1005048013677 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 1005048013678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1005048013679 homodimer interface [polypeptide binding]; other site 1005048013680 catalytic residue [active] 1005048013681 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 1005048013682 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048013683 substrate binding pocket [chemical binding]; other site 1005048013684 membrane-bound complex binding site; other site 1005048013685 hinge residues; other site 1005048013686 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 1005048013687 active site 1005048013688 catalytic triad [active] 1005048013689 oxyanion hole [active] 1005048013690 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1005048013691 CoA binding domain; Region: CoA_binding; cl17356 1005048013692 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 1005048013693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1005048013694 substrate binding pocket [chemical binding]; other site 1005048013695 membrane-bound complex binding site; other site 1005048013696 hinge residues; other site 1005048013697 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1005048013698 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1005048013699 gamma subunit interface [polypeptide binding]; other site 1005048013700 epsilon subunit interface [polypeptide binding]; other site 1005048013701 LBP interface [polypeptide binding]; other site 1005048013702 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1005048013703 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1005048013704 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 1005048013705 alpha subunit interaction interface [polypeptide binding]; other site 1005048013706 Walker A motif; other site 1005048013707 ATP binding site [chemical binding]; other site 1005048013708 Walker B motif; other site 1005048013709 inhibitor binding site; inhibition site 1005048013710 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1005048013711 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1005048013712 core domain interface [polypeptide binding]; other site 1005048013713 delta subunit interface [polypeptide binding]; other site 1005048013714 epsilon subunit interface [polypeptide binding]; other site 1005048013715 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1005048013716 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1005048013717 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 1005048013718 beta subunit interaction interface [polypeptide binding]; other site 1005048013719 Walker A motif; other site 1005048013720 ATP binding site [chemical binding]; other site 1005048013721 Walker B motif; other site 1005048013722 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1005048013723 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1005048013724 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1005048013725 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1005048013726 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1005048013727 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1005048013728 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1005048013729 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1005048013730 ATP synthase I chain; Region: ATP_synt_I; cl09170 1005048013731 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1005048013732 ParB-like nuclease domain; Region: ParB; smart00470 1005048013733 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1005048013734 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 1005048013735 P-loop; other site 1005048013736 Magnesium ion binding site [ion binding]; other site 1005048013737 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 1005048013738 Magnesium ion binding site [ion binding]; other site 1005048013739 LysE type translocator; Region: LysE; cl00565 1005048013740 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1005048013741 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 1005048013742 S-adenosylmethionine binding site [chemical binding]; other site 1005048013743 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1005048013744 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1005048013745 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1005048013746 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1005048013747 hypothetical protein; Provisional; Region: PRK10621 1005048013748 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1005048013749 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1005048013750 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 1005048013751 TM-ABC transporter signature motif; other site 1005048013752 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1005048013753 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 1005048013754 TM-ABC transporter signature motif; other site 1005048013755 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1005048013756 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 1005048013757 putative ligand binding site [chemical binding]; other site 1005048013758 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1005048013759 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1005048013760 Walker A/P-loop; other site 1005048013761 ATP binding site [chemical binding]; other site 1005048013762 Q-loop/lid; other site 1005048013763 ABC transporter signature motif; other site 1005048013764 Walker B; other site 1005048013765 D-loop; other site 1005048013766 H-loop/switch region; other site 1005048013767 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1005048013768 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1005048013769 Walker A/P-loop; other site 1005048013770 ATP binding site [chemical binding]; other site 1005048013771 Q-loop/lid; other site 1005048013772 ABC transporter signature motif; other site 1005048013773 Walker B; other site 1005048013774 D-loop; other site 1005048013775 H-loop/switch region; other site 1005048013776 choline dehydrogenase; Validated; Region: PRK02106 1005048013777 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1005048013778 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1005048013779 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1005048013780 tetrameric interface [polypeptide binding]; other site 1005048013781 NAD binding site [chemical binding]; other site 1005048013782 catalytic residues [active] 1005048013783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013785 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 1005048013786 dimerization interface [polypeptide binding]; other site 1005048013787 aspartate carbamoyltransferase; Provisional; Region: PRK11891 1005048013788 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1005048013789 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1005048013790 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1005048013791 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1005048013792 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1005048013793 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1005048013794 Proline dehydrogenase; Region: Pro_dh; pfam01619 1005048013795 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1005048013796 Glutamate binding site [chemical binding]; other site 1005048013797 NAD binding site [chemical binding]; other site 1005048013798 catalytic residues [active] 1005048013799 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 1005048013800 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1005048013801 putative DNA binding site [nucleotide binding]; other site 1005048013802 putative Zn2+ binding site [ion binding]; other site 1005048013803 AsnC family; Region: AsnC_trans_reg; pfam01037 1005048013804 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1005048013805 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1005048013806 metal binding site [ion binding]; metal-binding site 1005048013807 putative dimer interface [polypeptide binding]; other site 1005048013808 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1005048013809 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1005048013810 DNA binding site [nucleotide binding] 1005048013811 domain linker motif; other site 1005048013812 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1005048013813 putative dimerization interface [polypeptide binding]; other site 1005048013814 putative ligand binding site [chemical binding]; other site 1005048013815 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1005048013816 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1005048013817 N- and C-terminal domain interface [polypeptide binding]; other site 1005048013818 active site 1005048013819 catalytic site [active] 1005048013820 metal binding site [ion binding]; metal-binding site 1005048013821 carbohydrate binding site [chemical binding]; other site 1005048013822 ATP binding site [chemical binding]; other site 1005048013823 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1005048013824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1005048013825 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 1005048013826 substrate binding pocket [chemical binding]; other site 1005048013827 dimerization interface [polypeptide binding]; other site 1005048013828 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_GTP; cd00819 1005048013829 active site 1005048013830 substrate-binding site [chemical binding]; other site 1005048013831 metal-binding site [ion binding] 1005048013832 GTP binding site [chemical binding]; other site 1005048013833 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1005048013834 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1005048013835 dimerization interface [polypeptide binding]; other site 1005048013836 NAD binding site [chemical binding]; other site 1005048013837 ligand binding site [chemical binding]; other site 1005048013838 catalytic site [active] 1005048013839 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 1005048013840 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1005048013841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1005048013842 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1005048013843 Cytochrome c; Region: Cytochrom_C; pfam00034 1005048013844 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1005048013845 Asparaginase; Region: Asparaginase; pfam00710 1005048013846 active site 1005048013847 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1005048013848 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1005048013849 active site 1005048013850 Zn binding site [ion binding]; other site 1005048013851 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1005048013852 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 1005048013853 trimer interface [polypeptide binding]; other site 1005048013854 eyelet of channel; other site 1005048013855 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1005048013856 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1005048013857 Walker A/P-loop; other site 1005048013858 ATP binding site [chemical binding]; other site 1005048013859 Q-loop/lid; other site 1005048013860 ABC transporter signature motif; other site 1005048013861 Walker B; other site 1005048013862 D-loop; other site 1005048013863 H-loop/switch region; other site 1005048013864 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1005048013865 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 1005048013866 dimer interface [polypeptide binding]; other site 1005048013867 conserved gate region; other site 1005048013868 ABC-ATPase subunit interface; other site 1005048013869 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 1005048013870 dimer interface [polypeptide binding]; other site 1005048013871 conserved gate region; other site 1005048013872 putative PBP binding loops; other site 1005048013873 ABC-ATPase subunit interface; other site 1005048013874 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1005048013875 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1005048013876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1005048013877 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1005048013878 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 1005048013879 active site 1005048013880 phosphorylation site [posttranslational modification] 1005048013881 intermolecular recognition site; other site 1005048013882 dimerization interface [polypeptide binding]; other site 1005048013883 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 1005048013884 DNA binding site [nucleotide binding] 1005048013885 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1005048013886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1005048013887 HAMP domain; Region: HAMP; pfam00672 1005048013888 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 1005048013889 dimer interface [polypeptide binding]; other site 1005048013890 phosphorylation site [posttranslational modification] 1005048013891 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 1005048013892 ATP binding site [chemical binding]; other site 1005048013893 Mg2+ binding site [ion binding]; other site 1005048013894 G-X-G motif; other site 1005048013895 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1005048013896 putative homodimer interface [polypeptide binding]; other site 1005048013897 putative homotetramer interface [polypeptide binding]; other site 1005048013898 putative allosteric switch controlling residues; other site 1005048013899 putative metal binding site [ion binding]; other site 1005048013900 putative homodimer-homodimer interface [polypeptide binding]; other site 1005048013901 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 1005048013902 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1005048013903 PilX N-terminal; Region: PilX_N; pfam14341 1005048013904 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1005048013905 putative major pilin subunit; Provisional; Region: PRK10574 1005048013906 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1005048013907 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1005048013908 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1005048013909 G1 box; other site 1005048013910 GTP/Mg2+ binding site [chemical binding]; other site 1005048013911 Switch I region; other site 1005048013912 G2 box; other site 1005048013913 Switch II region; other site 1005048013914 G3 box; other site 1005048013915 G4 box; other site 1005048013916 G5 box; other site 1005048013917 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1005048013918 membrane protein insertase; Provisional; Region: PRK01318 1005048013919 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1005048013920 Haemolytic domain; Region: Haemolytic; pfam01809 1005048013921 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399