-- dump date 20140619_234644 -- class Genbank::misc_feature -- table misc_feature_note -- id note 313598000001 cytidylate kinase; Provisional; Region: cmk; PRK00023 313598000002 AAA domain; Region: AAA_17; pfam13207 313598000003 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 313598000004 CMP-binding site; other site 313598000005 The sites determining sugar specificity; other site 313598000006 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 313598000007 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 313598000008 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 313598000009 homotrimer interaction site [polypeptide binding]; other site 313598000010 putative active site [active] 313598000011 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 313598000012 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 313598000013 RNA binding site [nucleotide binding]; other site 313598000014 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 313598000015 RNA binding site [nucleotide binding]; other site 313598000016 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 313598000017 RNA binding site [nucleotide binding]; other site 313598000018 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 313598000019 RNA binding site [nucleotide binding]; other site 313598000020 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 313598000021 RNA binding site [nucleotide binding]; other site 313598000022 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 313598000023 RNA binding site [nucleotide binding]; other site 313598000024 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 313598000025 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 313598000026 active site 313598000027 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 313598000028 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 313598000029 active site 313598000030 substrate binding site [chemical binding]; other site 313598000031 metal binding site [ion binding]; metal-binding site 313598000032 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313598000033 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 313598000034 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598000035 catalytic residue [active] 313598000036 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 313598000037 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 313598000038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 313598000039 putative acyl-acceptor binding pocket; other site 313598000040 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 313598000041 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 313598000042 putative acyl-acceptor binding pocket; other site 313598000043 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313598000044 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598000045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598000046 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 313598000047 active site 313598000048 phosphorylation site [posttranslational modification] 313598000049 intermolecular recognition site; other site 313598000050 dimerization interface [polypeptide binding]; other site 313598000051 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 313598000052 DNA binding residues [nucleotide binding] 313598000053 dimerization interface [polypeptide binding]; other site 313598000054 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598000055 Response regulator receiver domain; Region: Response_reg; pfam00072 313598000056 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 313598000057 active site 313598000058 phosphorylation site [posttranslational modification] 313598000059 intermolecular recognition site; other site 313598000060 dimerization interface [polypeptide binding]; other site 313598000061 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 313598000062 GAF domain; Region: GAF; pfam01590 313598000063 Phytochrome region; Region: PHY; pfam00360 313598000064 HWE histidine kinase; Region: HWE_HK; smart00911 313598000065 Response regulator receiver domain; Region: Response_reg; pfam00072 313598000066 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 313598000067 active site 313598000068 phosphorylation site [posttranslational modification] 313598000069 intermolecular recognition site; other site 313598000070 dimerization interface [polypeptide binding]; other site 313598000071 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 313598000072 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 313598000073 metal-binding site [ion binding] 313598000074 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 313598000075 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313598000076 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313598000077 HlyD family secretion protein; Region: HlyD_3; pfam13437 313598000078 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313598000079 Domain of unknown function (DUF305); Region: DUF305; cl17794 313598000080 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 313598000081 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313598000082 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 313598000083 metal-binding site [ion binding] 313598000084 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 313598000085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313598000086 Soluble P-type ATPase [General function prediction only]; Region: COG4087 313598000087 Outer membrane efflux protein; Region: OEP; pfam02321 313598000088 Outer membrane efflux protein; Region: OEP; pfam02321 313598000089 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313598000090 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313598000091 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 313598000092 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313598000093 Soluble P-type ATPase [General function prediction only]; Region: COG4087 313598000094 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 313598000095 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 313598000096 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 313598000097 metal binding site 2 [ion binding]; metal-binding site 313598000098 putative DNA binding helix; other site 313598000099 metal binding site 1 [ion binding]; metal-binding site 313598000100 dimer interface [polypeptide binding]; other site 313598000101 structural Zn2+ binding site [ion binding]; other site 313598000102 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000103 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 313598000104 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313598000105 AAA domain; Region: AAA_25; pfam13481 313598000106 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 313598000107 Walker A motif; other site 313598000108 ATP binding site [chemical binding]; other site 313598000109 Walker B motif; other site 313598000110 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 313598000111 active site 313598000112 catalytic residues [active] 313598000113 DNA binding site [nucleotide binding] 313598000114 Int/Topo IB signature motif; other site 313598000115 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 313598000116 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 313598000117 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 313598000118 homodimer interface [polypeptide binding]; other site 313598000119 substrate-cofactor binding pocket; other site 313598000120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598000121 catalytic residue [active] 313598000122 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 313598000123 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 313598000124 IHF dimer interface [polypeptide binding]; other site 313598000125 IHF - DNA interface [nucleotide binding]; other site 313598000126 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 313598000127 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 313598000128 putative active site [active] 313598000129 substrate binding site [chemical binding]; other site 313598000130 putative cosubstrate binding site; other site 313598000131 catalytic site [active] 313598000132 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 313598000133 substrate binding site [chemical binding]; other site 313598000134 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 313598000135 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 313598000136 ATP binding site [chemical binding]; other site 313598000137 putative Mg++ binding site [ion binding]; other site 313598000138 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 313598000139 nucleotide binding region [chemical binding]; other site 313598000140 ATP-binding site [chemical binding]; other site 313598000141 Predicted ATPase [General function prediction only]; Region: COG3911 313598000142 AAA domain; Region: AAA_28; pfam13521 313598000143 Protein of unknown function (DUF493); Region: DUF493; pfam04359 313598000144 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313598000145 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313598000146 Uncharacterized protein conserved in archaea (DUF2258); Region: DUF2258; cl01797 313598000147 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313598000148 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313598000149 MoxR-like ATPases [General function prediction only]; Region: COG0714 313598000150 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 313598000151 Walker A motif; other site 313598000152 ATP binding site [chemical binding]; other site 313598000153 Walker B motif; other site 313598000154 arginine finger; other site 313598000155 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 313598000156 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 313598000157 S-adenosylmethionine binding site [chemical binding]; other site 313598000158 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 313598000159 AAA domain; Region: AAA_30; pfam13604 313598000160 Family description; Region: UvrD_C_2; pfam13538 313598000161 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 313598000162 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 313598000163 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 313598000164 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 313598000165 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313598000166 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313598000167 Low molecular weight phosphatase family; Region: LMWPc; cl00105 313598000168 Smr domain; Region: Smr; cl02619 313598000169 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 313598000170 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 313598000171 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598000172 catalytic residue [active] 313598000173 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 313598000174 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_4; cd11350 313598000175 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313598000176 active site 313598000177 catalytic site [active] 313598000178 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598000179 SusE outer membrane protein; Region: SusE; pfam14292 313598000180 SusE outer membrane protein; Region: SusE; pfam14292 313598000181 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 313598000182 starch binding site [chemical binding]; other site 313598000183 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 313598000184 starch binding site [chemical binding]; other site 313598000185 carbohydrate-binding modules from Bacteroides thetaiotaomicron SusE, SusF and similar proteins; Region: CBM_SusE-F_like; cd12956 313598000186 starch binding site [chemical binding]; other site 313598000187 SusE outer membrane protein; Region: SusE; pfam14292 313598000188 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313598000189 starch binding outer membrane protein SusD; Region: SusD; cd08977 313598000190 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598000191 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000192 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313598000193 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 313598000194 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313598000195 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313598000196 DNA binding site [nucleotide binding] 313598000197 domain linker motif; other site 313598000198 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 313598000199 dimerization interface [polypeptide binding]; other site 313598000200 ligand binding site [chemical binding]; other site 313598000201 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 313598000202 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598000203 putative substrate translocation pore; other site 313598000204 beta-phosphoglucomutase; Region: bPGM; TIGR01990 313598000205 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 313598000206 maltose phosphorylase; Provisional; Region: PRK13807 313598000207 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 313598000208 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 313598000209 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 313598000210 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313598000211 Sulfatase; Region: Sulfatase; cl17466 313598000212 Sulfatase; Region: Sulfatase; cl17466 313598000213 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 313598000214 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 313598000215 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313598000216 Ca binding site [ion binding]; other site 313598000217 active site 313598000218 homodimer interface [polypeptide binding]; other site 313598000219 catalytic site [active] 313598000220 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 313598000221 Putative esterase; Region: Esterase; pfam00756 313598000222 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313598000223 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 313598000224 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 313598000225 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 313598000226 putative active site [active] 313598000227 putative catalytic site [active] 313598000228 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313598000229 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 313598000230 active site 313598000231 catalytic site [active] 313598000232 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313598000233 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 313598000234 active site 313598000235 active site 313598000236 catalytic site [active] 313598000237 catalytic site [active] 313598000238 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 313598000239 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; cl17315 313598000240 dimerization interface [polypeptide binding]; other site 313598000241 DNA binding residues [nucleotide binding] 313598000242 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000243 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598000244 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598000245 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313598000246 starch binding outer membrane protein SusD; Region: SusD; cd08977 313598000247 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 313598000248 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 313598000249 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 313598000250 MFS/sugar transport protein; Region: MFS_2; pfam13347 313598000251 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 313598000252 putative substrate translocation pore; other site 313598000253 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313598000254 Protein of unknown function (DUF819); Region: DUF819; cl02317 313598000255 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313598000256 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 313598000257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 313598000258 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313598000259 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 313598000260 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313598000261 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 313598000262 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 313598000263 active site 313598000264 Zn binding site [ion binding]; other site 313598000265 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 313598000266 catalytic residues [active] 313598000267 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 313598000268 putative catalytic residue [active] 313598000269 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 313598000270 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 313598000271 acyl-activating enzyme (AAE) consensus motif; other site 313598000272 putative AMP binding site [chemical binding]; other site 313598000273 putative active site [active] 313598000274 putative CoA binding site [chemical binding]; other site 313598000275 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 313598000276 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 313598000277 acyl-activating enzyme (AAE) consensus motif; other site 313598000278 putative AMP binding site [chemical binding]; other site 313598000279 putative active site [active] 313598000280 putative CoA binding site [chemical binding]; other site 313598000281 hypothetical protein; Provisional; Region: PRK12378 313598000282 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 313598000283 propionate/acetate kinase; Provisional; Region: PRK12379 313598000284 phosphate acetyltransferase; Reviewed; Region: PRK05632 313598000285 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 313598000286 DRTGG domain; Region: DRTGG; pfam07085 313598000287 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 313598000288 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 313598000289 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313598000290 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 313598000291 non-specific DNA binding site [nucleotide binding]; other site 313598000292 salt bridge; other site 313598000293 sequence-specific DNA binding site [nucleotide binding]; other site 313598000294 malate synthase A; Region: malate_syn_A; TIGR01344 313598000295 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 313598000296 active site 313598000297 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 313598000298 tetramer interface [polypeptide binding]; other site 313598000299 active site 313598000300 Mg2+/Mn2+ binding site [ion binding]; other site 313598000301 active site 313598000302 metal binding site [ion binding]; metal-binding site 313598000303 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 313598000304 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 313598000305 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313598000306 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313598000307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000308 Walker A/P-loop; other site 313598000309 ATP binding site [chemical binding]; other site 313598000310 Q-loop/lid; other site 313598000311 ABC transporter signature motif; other site 313598000312 Walker B; other site 313598000313 D-loop; other site 313598000314 H-loop/switch region; other site 313598000315 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 313598000316 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 313598000317 CoenzymeA binding site [chemical binding]; other site 313598000318 subunit interaction site [polypeptide binding]; other site 313598000319 PHB binding site; other site 313598000320 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598000321 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313598000322 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 313598000323 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313598000324 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313598000325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000326 Walker A/P-loop; other site 313598000327 ATP binding site [chemical binding]; other site 313598000328 Q-loop/lid; other site 313598000329 ABC transporter signature motif; other site 313598000330 Walker B; other site 313598000331 D-loop; other site 313598000332 H-loop/switch region; other site 313598000333 transcription antitermination factor NusB; Region: nusB; TIGR01951 313598000334 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313598000335 Preprotein translocase subunit; Region: YajC; pfam02699 313598000336 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 313598000337 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 313598000338 CoA-binding site [chemical binding]; other site 313598000339 ATP-binding [chemical binding]; other site 313598000340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598000341 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 313598000342 dimer interface [polypeptide binding]; other site 313598000343 phosphorylation site [posttranslational modification] 313598000344 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 313598000345 ATP binding site [chemical binding]; other site 313598000346 Mg2+ binding site [ion binding]; other site 313598000347 G-X-G motif; other site 313598000348 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313598000349 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 313598000350 active site 313598000351 phosphorylation site [posttranslational modification] 313598000352 intermolecular recognition site; other site 313598000353 dimerization interface [polypeptide binding]; other site 313598000354 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 313598000355 DNA binding site [nucleotide binding] 313598000356 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 313598000357 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313598000358 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 313598000359 Probable Catalytic site; other site 313598000360 metal-binding site 313598000361 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 313598000362 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 313598000363 DNA polymerase III, delta subunit; Region: holA; TIGR01128 313598000364 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 313598000365 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 313598000366 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598000367 metal binding site [ion binding]; metal-binding site 313598000368 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 313598000369 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 313598000370 Walker A/P-loop; other site 313598000371 ATP binding site [chemical binding]; other site 313598000372 Q-loop/lid; other site 313598000373 ABC transporter signature motif; other site 313598000374 Walker B; other site 313598000375 D-loop; other site 313598000376 H-loop/switch region; other site 313598000377 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 313598000378 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 313598000379 ABC-ATPase subunit interface; other site 313598000380 dimer interface [polypeptide binding]; other site 313598000381 putative PBP binding regions; other site 313598000382 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 313598000383 active site 313598000384 dimerization interface [polypeptide binding]; other site 313598000385 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 313598000386 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 313598000387 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 313598000388 dimerization interface [polypeptide binding]; other site 313598000389 active site 313598000390 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 313598000391 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 313598000392 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 313598000393 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 313598000394 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 313598000395 dimer interface [polypeptide binding]; other site 313598000396 motif 1; other site 313598000397 active site 313598000398 motif 2; other site 313598000399 motif 3; other site 313598000400 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 313598000401 anticodon binding site; other site 313598000402 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313598000403 GTP cyclohydrolase I; Provisional; Region: PLN03044 313598000404 active site 313598000405 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598000406 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598000407 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 313598000408 DNA binding residues [nucleotide binding] 313598000409 HEAT repeats; Region: HEAT_2; pfam13646 313598000410 Glycosyl hydrolase family 81; Region: Glyco_hydro_81; cl02310 313598000411 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 313598000412 putative metal binding site [ion binding]; other site 313598000413 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313598000414 Interdomain contacts; other site 313598000415 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598000416 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 313598000417 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 313598000418 nucleotide binding region [chemical binding]; other site 313598000419 helicase superfamily c-terminal domain; Region: HELICc; smart00490 313598000420 ATP-binding site [chemical binding]; other site 313598000421 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 313598000422 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 313598000423 DinB superfamily; Region: DinB_2; pfam12867 313598000424 MutS domain III; Region: MutS_III; pfam05192 313598000425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000426 Walker A/P-loop; other site 313598000427 ATP binding site [chemical binding]; other site 313598000428 Q-loop/lid; other site 313598000429 ABC transporter signature motif; other site 313598000430 Walker B; other site 313598000431 D-loop; other site 313598000432 H-loop/switch region; other site 313598000433 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 313598000434 ligand binding site [chemical binding]; other site 313598000435 active site 313598000436 UGI interface [polypeptide binding]; other site 313598000437 catalytic site [active] 313598000438 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 313598000439 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313598000440 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313598000441 putative active site [active] 313598000442 putative metal binding site [ion binding]; other site 313598000443 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 313598000444 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 313598000445 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 313598000446 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 313598000447 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 313598000448 putative rRNA binding site [nucleotide binding]; other site 313598000449 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 313598000450 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 313598000451 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 313598000452 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 313598000453 aromatic arch; other site 313598000454 DCoH dimer interaction site [polypeptide binding]; other site 313598000455 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 313598000456 DCoH tetramer interaction site [polypeptide binding]; other site 313598000457 substrate binding site [chemical binding]; other site 313598000458 TRAM domain; Region: TRAM; pfam01938 313598000459 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 313598000460 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 313598000461 S-adenosylmethionine binding site [chemical binding]; other site 313598000462 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 313598000463 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 313598000464 inhibitor-cofactor binding pocket; inhibition site 313598000465 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598000466 catalytic residue [active] 313598000467 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 313598000468 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 313598000469 hypothetical protein; Provisional; Region: PRK14623 313598000470 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 313598000471 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313598000472 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313598000473 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 313598000474 dimer interface [polypeptide binding]; other site 313598000475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598000476 catalytic residue [active] 313598000477 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313598000478 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 313598000479 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598000480 catalytic residue [active] 313598000481 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 313598000482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598000483 NAD(P) binding site [chemical binding]; other site 313598000484 active site 313598000485 Cupin domain; Region: Cupin_2; cl17218 313598000486 Predicted transcriptional regulators [Transcription]; Region: COG1733 313598000487 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 313598000488 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598000489 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598000490 short chain dehydrogenase; Provisional; Region: PRK06197 313598000491 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 313598000492 putative NAD(P) binding site [chemical binding]; other site 313598000493 active site 313598000494 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 313598000495 dimer interface [polypeptide binding]; other site 313598000496 FMN binding site [chemical binding]; other site 313598000497 Cupin domain; Region: Cupin_2; pfam07883 313598000498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 313598000499 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313598000500 Predicted transcriptional regulator [Transcription]; Region: COG2378 313598000501 HTH domain; Region: HTH_11; pfam08279 313598000502 WYL domain; Region: WYL; pfam13280 313598000503 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 313598000504 Repair protein; Region: Repair_PSII; pfam04536 313598000505 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 313598000506 RDD family; Region: RDD; pfam06271 313598000507 Tissue factor; Region: Tissue_fac; pfam01108 313598000508 AAA domain; Region: AAA_23; pfam13476 313598000509 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 313598000510 integron integrase; Region: integrase_gron; TIGR02249 313598000511 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 313598000512 active site 313598000513 DNA binding site [nucleotide binding] 313598000514 Int/Topo IB signature motif; other site 313598000515 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313598000516 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 313598000517 N-terminal plug; other site 313598000518 ligand-binding site [chemical binding]; other site 313598000519 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 313598000520 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 313598000521 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 313598000522 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 313598000523 active site 313598000524 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000525 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 313598000526 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 313598000527 ADP binding site [chemical binding]; other site 313598000528 magnesium binding site [ion binding]; other site 313598000529 putative shikimate binding site; other site 313598000530 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 313598000531 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598000532 active site 313598000533 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 313598000534 RNA binding surface [nucleotide binding]; other site 313598000535 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313598000536 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 313598000537 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 313598000538 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 313598000539 homodimer interface [polypeptide binding]; other site 313598000540 NADP binding site [chemical binding]; other site 313598000541 substrate binding site [chemical binding]; other site 313598000542 signal recognition particle protein; Provisional; Region: PRK10867 313598000543 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 313598000544 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 313598000545 P loop; other site 313598000546 GTP binding site [chemical binding]; other site 313598000547 Signal peptide binding domain; Region: SRP_SPB; pfam02978 313598000548 DinB superfamily; Region: DinB_2; pfam12867 313598000549 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 313598000550 SelR domain; Region: SelR; pfam01641 313598000551 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598000552 Peptidase family M48; Region: Peptidase_M48; pfam01435 313598000553 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 313598000554 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 313598000555 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000556 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 313598000557 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 313598000558 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 313598000559 adenylosuccinate lyase; Provisional; Region: PRK09285 313598000560 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 313598000561 tetramer interface [polypeptide binding]; other site 313598000562 active site 313598000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598000564 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 313598000565 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 313598000566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598000567 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 313598000568 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 313598000569 FMN binding site [chemical binding]; other site 313598000570 substrate binding site [chemical binding]; other site 313598000571 putative catalytic residue [active] 313598000572 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 313598000573 DNA-binding site [nucleotide binding]; DNA binding site 313598000574 RNA-binding motif; other site 313598000575 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 313598000576 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 313598000577 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313598000578 catalytic residue [active] 313598000579 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598000580 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313598000581 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 313598000582 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313598000583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598000584 Coenzyme A binding pocket [chemical binding]; other site 313598000585 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 313598000586 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 313598000587 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313598000588 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598000589 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 313598000590 putative catalytic site [active] 313598000591 putative metal binding site [ion binding]; other site 313598000592 putative phosphate binding site [ion binding]; other site 313598000593 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313598000594 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313598000595 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 313598000596 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 313598000597 ATP binding site [chemical binding]; other site 313598000598 Mg2+ binding site [ion binding]; other site 313598000599 G-X-G motif; other site 313598000600 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 313598000601 ATP binding site [chemical binding]; other site 313598000602 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 313598000603 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 313598000604 homopentamer interface [polypeptide binding]; other site 313598000605 active site 313598000606 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598000607 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 313598000608 binding surface 313598000609 TPR motif; other site 313598000610 recombination protein F; Reviewed; Region: recF; PRK00064 313598000611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000612 Walker A/P-loop; other site 313598000613 ATP binding site [chemical binding]; other site 313598000614 Q-loop/lid; other site 313598000615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000616 ABC transporter signature motif; other site 313598000617 Walker B; other site 313598000618 D-loop; other site 313598000619 H-loop/switch region; other site 313598000620 Protein of unknown function (DUF721); Region: DUF721; pfam05258 313598000621 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 313598000622 active site 313598000623 multimer interface [polypeptide binding]; other site 313598000624 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 313598000625 putative active site [active] 313598000626 putative metal binding site [ion binding]; other site 313598000627 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 313598000628 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 313598000629 DHH family; Region: DHH; pfam01368 313598000630 DHHA1 domain; Region: DHHA1; pfam02272 313598000631 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 313598000632 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313598000633 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 313598000634 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 313598000635 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313598000636 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 313598000637 active site 313598000638 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313598000639 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313598000640 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 313598000641 active site 313598000642 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 313598000643 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 313598000644 catalytic residues [active] 313598000645 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 313598000646 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 313598000647 putative tRNA-binding site [nucleotide binding]; other site 313598000648 B3/4 domain; Region: B3_4; pfam03483 313598000649 tRNA synthetase B5 domain; Region: B5; pfam03484 313598000650 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 313598000651 dimer interface [polypeptide binding]; other site 313598000652 motif 1; other site 313598000653 motif 3; other site 313598000654 motif 2; other site 313598000655 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 313598000656 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 313598000657 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 313598000658 quinone interaction residues [chemical binding]; other site 313598000659 active site 313598000660 catalytic residues [active] 313598000661 FMN binding site [chemical binding]; other site 313598000662 substrate binding site [chemical binding]; other site 313598000663 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 313598000664 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313598000665 Predicted membrane protein [Function unknown]; Region: COG4325 313598000666 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 313598000667 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 313598000668 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 313598000669 Ion transport protein; Region: Ion_trans; pfam00520 313598000670 Ion channel; Region: Ion_trans_2; pfam07885 313598000671 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 313598000672 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 313598000673 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 313598000674 binding surface 313598000675 TPR motif; other site 313598000676 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 313598000677 TPR motif; other site 313598000678 binding surface 313598000679 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000680 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313598000681 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 313598000682 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 313598000683 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 313598000684 Anti-sigma-K factor rskA; Region: RskA; pfam10099 313598000685 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598000686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598000687 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 313598000688 DNA binding residues [nucleotide binding] 313598000689 Caspase domain; Region: Peptidase_C14; pfam00656 313598000690 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 313598000691 active site 313598000692 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313598000693 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313598000694 active site 313598000695 catalytic site [active] 313598000696 substrate binding site [chemical binding]; other site 313598000697 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 313598000698 GIY-YIG motif/motif A; other site 313598000699 active site 313598000700 catalytic site [active] 313598000701 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 313598000702 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313598000703 catalytic residue [active] 313598000704 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 313598000705 Uncharacterized conserved protein [Function unknown]; Region: COG4198 313598000706 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313598000707 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 313598000708 putative ligand binding site [chemical binding]; other site 313598000709 NAD binding site [chemical binding]; other site 313598000710 dimerization interface [polypeptide binding]; other site 313598000711 catalytic site [active] 313598000712 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 313598000713 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598000714 catalytic residue [active] 313598000715 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313598000716 NAD(P) binding site [chemical binding]; other site 313598000717 catalytic residues [active] 313598000718 4Fe-4S binding domain; Region: Fer4; cl02805 313598000719 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000720 GTP-binding protein YchF; Reviewed; Region: PRK09601 313598000721 YchF GTPase; Region: YchF; cd01900 313598000722 G1 box; other site 313598000723 GTP/Mg2+ binding site [chemical binding]; other site 313598000724 Switch I region; other site 313598000725 G2 box; other site 313598000726 Switch II region; other site 313598000727 G3 box; other site 313598000728 G4 box; other site 313598000729 G5 box; other site 313598000730 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 313598000731 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 313598000732 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 313598000733 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 313598000734 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 313598000735 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 313598000736 active site 313598000737 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 313598000738 DNA topoisomerase III; Provisional; Region: PRK07726 313598000739 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 313598000740 active site 313598000741 putative interdomain interaction site [polypeptide binding]; other site 313598000742 putative metal-binding site [ion binding]; other site 313598000743 putative nucleotide binding site [chemical binding]; other site 313598000744 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 313598000745 domain I; other site 313598000746 DNA binding groove [nucleotide binding] 313598000747 phosphate binding site [ion binding]; other site 313598000748 domain II; other site 313598000749 domain III; other site 313598000750 nucleotide binding site [chemical binding]; other site 313598000751 catalytic site [active] 313598000752 domain IV; other site 313598000753 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 313598000754 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 313598000755 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 313598000756 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 313598000757 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 313598000758 RNA binding site [nucleotide binding]; other site 313598000759 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 313598000760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598000761 Coenzyme A binding pocket [chemical binding]; other site 313598000762 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313598000763 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 313598000764 diaminopimelate decarboxylase; Region: lysA; TIGR01048 313598000765 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 313598000766 active site 313598000767 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313598000768 substrate binding site [chemical binding]; other site 313598000769 catalytic residues [active] 313598000770 dimer interface [polypeptide binding]; other site 313598000771 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 313598000772 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 313598000773 ATP binding site [chemical binding]; other site 313598000774 Mg2+ binding site [ion binding]; other site 313598000775 G-X-G motif; other site 313598000776 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 313598000777 ATP binding site [chemical binding]; other site 313598000778 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 313598000779 active site 313598000780 putative metal-binding site [ion binding]; other site 313598000781 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313598000782 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 313598000783 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; cl00148 313598000784 CAP-like domain; other site 313598000785 active site 313598000786 primary dimer interface [polypeptide binding]; other site 313598000787 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 313598000788 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 313598000789 putative ligand binding site [chemical binding]; other site 313598000790 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 313598000791 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 313598000792 active site 313598000793 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313598000794 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598000795 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313598000796 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 313598000797 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 313598000798 Part of AAA domain; Region: AAA_19; pfam13245 313598000799 Family description; Region: UvrD_C_2; pfam13538 313598000800 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 313598000801 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 313598000802 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 313598000803 hinge; other site 313598000804 active site 313598000805 NUMOD4 motif; Region: NUMOD4; pfam07463 313598000806 HNH endonuclease; Region: HNH_3; pfam13392 313598000807 GrpE; Region: GrpE; pfam01025 313598000808 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 313598000809 dimer interface [polypeptide binding]; other site 313598000810 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 313598000811 chaperone protein DnaJ; Provisional; Region: PRK14289 313598000812 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 313598000813 HSP70 interaction site [polypeptide binding]; other site 313598000814 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 313598000815 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 313598000816 dimer interface [polypeptide binding]; other site 313598000817 aconitate hydratase; Validated; Region: PRK07229 313598000818 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 313598000819 substrate binding site [chemical binding]; other site 313598000820 ligand binding site [chemical binding]; other site 313598000821 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 313598000822 substrate binding site [chemical binding]; other site 313598000823 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 313598000824 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598000825 putative substrate translocation pore; other site 313598000826 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 313598000827 active site 313598000828 catalytic residues [active] 313598000829 metal binding site [ion binding]; metal-binding site 313598000830 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 313598000831 Drosophila melanogaster CG11883 and related proteins, N-terminal metallophosphatase domain; Region: MPP_CG11883_N; cd07406 313598000832 putative active site [active] 313598000833 putative metal binding site [ion binding]; other site 313598000834 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 313598000835 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 313598000836 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 313598000837 ATP binding site [chemical binding]; other site 313598000838 Mg++ binding site [ion binding]; other site 313598000839 motif III; other site 313598000840 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 313598000841 nucleotide binding region [chemical binding]; other site 313598000842 ATP-binding site [chemical binding]; other site 313598000843 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 313598000844 RNA binding site [nucleotide binding]; other site 313598000845 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 313598000846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000847 Walker A/P-loop; other site 313598000848 ATP binding site [chemical binding]; other site 313598000849 Q-loop/lid; other site 313598000850 ABC transporter signature motif; other site 313598000851 Walker B; other site 313598000852 D-loop; other site 313598000853 H-loop/switch region; other site 313598000854 ABC transporter; Region: ABC_tran_2; pfam12848 313598000855 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598000856 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 313598000857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313598000858 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 313598000859 dimerization interface [polypeptide binding]; other site 313598000860 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 313598000861 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 313598000862 dimerization interface [polypeptide binding]; other site 313598000863 DPS ferroxidase diiron center [ion binding]; other site 313598000864 ion pore; other site 313598000865 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 313598000866 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 313598000867 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313598000868 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313598000869 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313598000870 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313598000871 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 313598000872 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 313598000873 S-adenosylmethionine binding site [chemical binding]; other site 313598000874 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 313598000875 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 313598000876 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 313598000877 active site 313598000878 motif I; other site 313598000879 motif II; other site 313598000880 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 313598000881 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 313598000882 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 313598000883 homodimer interface [polypeptide binding]; other site 313598000884 substrate-cofactor binding pocket; other site 313598000885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598000886 catalytic residue [active] 313598000887 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 313598000888 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 313598000889 non-specific DNA binding site [nucleotide binding]; other site 313598000890 salt bridge; other site 313598000891 sequence-specific DNA binding site [nucleotide binding]; other site 313598000892 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598000893 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 313598000894 active site 313598000895 phosphorylation site [posttranslational modification] 313598000896 intermolecular recognition site; other site 313598000897 dimerization interface [polypeptide binding]; other site 313598000898 LytTr DNA-binding domain; Region: LytTR; smart00850 313598000899 Histidine kinase; Region: His_kinase; pfam06580 313598000900 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 313598000901 Mg2+ binding site [ion binding]; other site 313598000902 G-X-G motif; other site 313598000903 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598000904 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313598000905 Histidine kinase; Region: HisKA_2; pfam07568 313598000906 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 313598000907 ATP binding site [chemical binding]; other site 313598000908 Mg2+ binding site [ion binding]; other site 313598000909 G-X-G motif; other site 313598000910 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 313598000911 active site 313598000912 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598000913 phosphorylation site [posttranslational modification] 313598000914 intermolecular recognition site; other site 313598000915 dimerization interface [polypeptide binding]; other site 313598000916 LytTr DNA-binding domain; Region: LytTR; smart00850 313598000917 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313598000918 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313598000919 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313598000920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598000921 Walker A/P-loop; other site 313598000922 ATP binding site [chemical binding]; other site 313598000923 Q-loop/lid; other site 313598000924 ABC transporter signature motif; other site 313598000925 Walker B; other site 313598000926 D-loop; other site 313598000927 H-loop/switch region; other site 313598000928 RNA polymerase sigma factor; Provisional; Region: PRK12513 313598000929 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598000930 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 313598000931 DNA binding residues [nucleotide binding] 313598000932 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 313598000933 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313598000934 NAD(P) binding site [chemical binding]; other site 313598000935 putative active site [active] 313598000936 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313598000937 endonuclease III; Region: ENDO3c; smart00478 313598000938 minor groove reading motif; other site 313598000939 helix-hairpin-helix signature motif; other site 313598000940 substrate binding pocket [chemical binding]; other site 313598000941 active site 313598000942 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 313598000943 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598000944 catalytic triad [active] 313598000945 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313598000946 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 313598000947 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 313598000948 PYR/PP interface [polypeptide binding]; other site 313598000949 dimer interface [polypeptide binding]; other site 313598000950 TPP binding site [chemical binding]; other site 313598000951 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313598000952 Maf-like protein; Reviewed; Region: PRK00078 313598000953 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 313598000954 active site 313598000955 dimer interface [polypeptide binding]; other site 313598000956 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 313598000957 SmpB-tmRNA interface; other site 313598000958 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 313598000959 catalytic core [active] 313598000960 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 313598000961 Clp amino terminal domain; Region: Clp_N; pfam02861 313598000962 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 313598000963 Walker A motif; other site 313598000964 ATP binding site [chemical binding]; other site 313598000965 Walker B motif; other site 313598000966 arginine finger; other site 313598000967 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 313598000968 Walker A motif; other site 313598000969 ATP binding site [chemical binding]; other site 313598000970 Walker B motif; other site 313598000971 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 313598000972 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 313598000973 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 313598000974 ATP binding site [chemical binding]; other site 313598000975 putative Mg++ binding site [ion binding]; other site 313598000976 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 313598000977 nucleotide binding region [chemical binding]; other site 313598000978 ATP-binding site [chemical binding]; other site 313598000979 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313598000980 Zn binding site [ion binding]; other site 313598000981 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313598000982 Zn binding site [ion binding]; other site 313598000983 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000984 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598000985 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 313598000986 active site pocket [active] 313598000987 oxyanion hole [active] 313598000988 catalytic triad [active] 313598000989 active site nucleophile [active] 313598000990 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 313598000991 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 313598000992 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 313598000993 dimerization interface [polypeptide binding]; other site 313598000994 active site 313598000995 Predicted permeases [General function prediction only]; Region: COG0795 313598000996 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313598000997 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313598000998 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 313598000999 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 313598001000 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 313598001001 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 313598001002 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 313598001003 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 313598001004 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 313598001005 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 313598001006 dimer interface [polypeptide binding]; other site 313598001007 catalytic triad [active] 313598001008 peroxidatic and resolving cysteines [active] 313598001009 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 313598001010 multidrug efflux protein; Reviewed; Region: PRK01766 313598001011 cation binding site [ion binding]; other site 313598001012 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 313598001013 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 313598001014 Ligand Binding Site [chemical binding]; other site 313598001015 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 313598001016 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 313598001017 inhibitor-cofactor binding pocket; inhibition site 313598001018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598001019 catalytic residue [active] 313598001020 OstA-like protein; Region: OstA_2; pfam13100 313598001021 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 313598001022 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 313598001023 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 313598001024 GDP-binding site [chemical binding]; other site 313598001025 ACT binding site; other site 313598001026 IMP binding site; other site 313598001027 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 313598001028 metal binding site 2 [ion binding]; metal-binding site 313598001029 putative DNA binding helix; other site 313598001030 metal binding site 1 [ion binding]; metal-binding site 313598001031 dimer interface [polypeptide binding]; other site 313598001032 structural Zn2+ binding site [ion binding]; other site 313598001033 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 313598001034 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598001035 Zn2+ binding site [ion binding]; other site 313598001036 Mg2+ binding site [ion binding]; other site 313598001037 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 313598001038 synthetase active site [active] 313598001039 NTP binding site [chemical binding]; other site 313598001040 metal binding site [ion binding]; metal-binding site 313598001041 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 313598001042 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 313598001043 Peptidase family M48; Region: Peptidase_M48; pfam01435 313598001044 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 313598001045 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 313598001046 nucleotide binding site [chemical binding]; other site 313598001047 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313598001048 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 313598001049 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598001050 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 313598001051 Amidohydrolase; Region: Amidohydro_4; pfam13147 313598001052 active site 313598001053 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 313598001054 active site 313598001055 Trypsin-sensitive surface-exposed protein; Region: CytadhesinP1; pfam12378 313598001056 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313598001057 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 313598001058 active site 313598001059 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 313598001060 replicative DNA helicase; Region: DnaB; TIGR00665 313598001061 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 313598001062 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 313598001063 Walker A motif; other site 313598001064 ATP binding site [chemical binding]; other site 313598001065 Walker B motif; other site 313598001066 DNA binding loops [nucleotide binding] 313598001067 transketolase; Reviewed; Region: PRK05899 313598001068 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 313598001069 TPP-binding site [chemical binding]; other site 313598001070 dimer interface [polypeptide binding]; other site 313598001071 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_5; cd04962 313598001072 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 313598001073 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 313598001074 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 313598001075 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 313598001076 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 313598001077 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 313598001078 membrane-bound complex binding site; other site 313598001079 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 313598001080 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 313598001081 histidinol dehydrogenase; Region: hisD; TIGR00069 313598001082 NAD binding site [chemical binding]; other site 313598001083 dimerization interface [polypeptide binding]; other site 313598001084 product binding site; other site 313598001085 substrate binding site [chemical binding]; other site 313598001086 zinc binding site [ion binding]; other site 313598001087 catalytic residues [active] 313598001088 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 313598001089 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 313598001090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598001091 homodimer interface [polypeptide binding]; other site 313598001092 catalytic residue [active] 313598001093 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 313598001094 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 313598001095 active site 313598001096 motif I; other site 313598001097 motif II; other site 313598001098 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 313598001099 putative active site pocket [active] 313598001100 4-fold oligomerization interface [polypeptide binding]; other site 313598001101 metal binding residues [ion binding]; metal-binding site 313598001102 3-fold/trimer interface [polypeptide binding]; other site 313598001103 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 313598001104 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 313598001105 putative active site [active] 313598001106 oxyanion strand; other site 313598001107 catalytic triad [active] 313598001108 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 313598001109 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 313598001110 catalytic residues [active] 313598001111 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 313598001112 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 313598001113 substrate binding site [chemical binding]; other site 313598001114 glutamase interaction surface [polypeptide binding]; other site 313598001115 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 313598001116 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 313598001117 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 313598001118 metal binding site [ion binding]; metal-binding site 313598001119 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 313598001120 TraB family; Region: TraB; cl12050 313598001121 LytTr DNA-binding domain; Region: LytTR; smart00850 313598001122 EamA-like transporter family; Region: EamA; pfam00892 313598001123 EamA-like transporter family; Region: EamA; pfam00892 313598001124 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598001125 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 313598001126 30S subunit binding site; other site 313598001127 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 313598001128 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 313598001129 FMN binding site [chemical binding]; other site 313598001130 active site 313598001131 substrate binding site [chemical binding]; other site 313598001132 catalytic residue [active] 313598001133 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 313598001134 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598001135 putative catalytic residues [active] 313598001136 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 313598001137 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 313598001138 potential catalytic triad [active] 313598001139 conserved cys residue [active] 313598001140 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 313598001141 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313598001142 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 313598001143 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 313598001144 TrkA-N domain; Region: TrkA_N; pfam02254 313598001145 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 313598001146 arsenical-resistance protein; Region: acr3; TIGR00832 313598001147 Lipocalin-like; Region: Lipocalin_3; pfam12702 313598001148 RDD family; Region: RDD; pfam06271 313598001149 Integral membrane protein DUF95; Region: DUF95; pfam01944 313598001150 MoxR-like ATPases [General function prediction only]; Region: COG0714 313598001151 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 313598001152 Walker A motif; other site 313598001153 ATP binding site [chemical binding]; other site 313598001154 Walker B motif; other site 313598001155 arginine finger; other site 313598001156 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313598001157 Protein of unknown function DUF58; Region: DUF58; pfam01882 313598001158 Protein of unknown function (DUF805); Region: DUF805; pfam05656 313598001159 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 313598001160 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313598001161 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313598001162 active site 313598001163 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 313598001164 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 313598001165 Prostaglandin dehydrogenases; Region: PGDH; cd05288 313598001166 NAD(P) binding site [chemical binding]; other site 313598001167 substrate binding site [chemical binding]; other site 313598001168 dimer interface [polypeptide binding]; other site 313598001169 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313598001170 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 313598001171 tetramer interface [polypeptide binding]; other site 313598001172 TPP-binding site [chemical binding]; other site 313598001173 heterodimer interface [polypeptide binding]; other site 313598001174 phosphorylation loop region [posttranslational modification] 313598001175 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313598001176 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 313598001177 alpha subunit interface [polypeptide binding]; other site 313598001178 TPP binding site [chemical binding]; other site 313598001179 heterodimer interface [polypeptide binding]; other site 313598001180 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313598001181 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 313598001182 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 313598001183 dimerization interface [polypeptide binding]; other site 313598001184 putative DNA binding site [nucleotide binding]; other site 313598001185 putative Zn2+ binding site [ion binding]; other site 313598001186 AsnC family; Region: AsnC_trans_reg; pfam01037 313598001187 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 313598001188 putative active site [active] 313598001189 Zn binding site [ion binding]; other site 313598001190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313598001191 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 313598001192 non-specific DNA binding site [nucleotide binding]; other site 313598001193 salt bridge; other site 313598001194 sequence-specific DNA binding site [nucleotide binding]; other site 313598001195 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313598001196 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 313598001197 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 313598001198 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 313598001199 homotetramer interface [polypeptide binding]; other site 313598001200 NAD(P) binding site [chemical binding]; other site 313598001201 homodimer interface [polypeptide binding]; other site 313598001202 active site 313598001203 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 313598001204 CoA binding domain; Region: CoA_binding; smart00881 313598001205 CoA-ligase; Region: Ligase_CoA; pfam00549 313598001206 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313598001207 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313598001208 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 313598001209 trimer interface [polypeptide binding]; other site 313598001210 active site 313598001211 UDP-GlcNAc binding site [chemical binding]; other site 313598001212 lipid binding site [chemical binding]; lipid-binding site 313598001213 elongation factor P; Validated; Region: PRK00529 313598001214 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 313598001215 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 313598001216 RNA binding site [nucleotide binding]; other site 313598001217 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 313598001218 RNA binding site [nucleotide binding]; other site 313598001219 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 313598001220 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 313598001221 active site 313598001222 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 313598001223 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 313598001224 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 313598001225 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313598001226 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313598001227 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 313598001228 trimer interface [polypeptide binding]; other site 313598001229 active site 313598001230 UDP-GlcNAc binding site [chemical binding]; other site 313598001231 lipid binding site [chemical binding]; lipid-binding site 313598001232 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 313598001233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598001234 Zn2+ binding site [ion binding]; other site 313598001235 Mg2+ binding site [ion binding]; other site 313598001236 Response regulator receiver domain; Region: Response_reg; pfam00072 313598001237 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 313598001238 active site 313598001239 phosphorylation site [posttranslational modification] 313598001240 intermolecular recognition site; other site 313598001241 dimerization interface [polypeptide binding]; other site 313598001242 PglZ domain; Region: PglZ; pfam08665 313598001243 TPR repeat; Region: TPR_11; pfam13414 313598001244 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 313598001245 binding surface 313598001246 TPR motif; other site 313598001247 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001248 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001249 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001250 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001251 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001252 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001253 FG-GAP repeat; Region: FG-GAP_2; pfam14312 313598001254 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313598001255 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 313598001256 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313598001257 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313598001258 hexamer interface [polypeptide binding]; other site 313598001259 ligand binding site [chemical binding]; other site 313598001260 putative active site [active] 313598001261 NAD(P) binding site [chemical binding]; other site 313598001262 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 313598001263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 313598001264 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313598001265 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313598001266 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313598001267 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598001268 NAD-dependent deacetylase; Provisional; Region: PRK00481 313598001269 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 313598001270 NAD+ binding site [chemical binding]; other site 313598001271 substrate binding site [chemical binding]; other site 313598001272 Zn binding site [ion binding]; other site 313598001273 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598001274 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 313598001275 active site 313598001276 phosphorylation site [posttranslational modification] 313598001277 intermolecular recognition site; other site 313598001278 dimerization interface [polypeptide binding]; other site 313598001279 LytTr DNA-binding domain; Region: LytTR; smart00850 313598001280 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 313598001281 dimer interface [polypeptide binding]; other site 313598001282 phosphorylation site [posttranslational modification] 313598001283 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 313598001284 ATP binding site [chemical binding]; other site 313598001285 Mg2+ binding site [ion binding]; other site 313598001286 G-X-G motif; other site 313598001287 FIST N domain; Region: FIST; pfam08495 313598001288 Uncharacterized conserved protein [Function unknown]; Region: COG3287 313598001289 FIST C domain; Region: FIST_C; pfam10442 313598001290 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 313598001291 Response regulator receiver domain; Region: Response_reg; pfam00072 313598001292 active site 313598001293 phosphorylation site [posttranslational modification] 313598001294 intermolecular recognition site; other site 313598001295 dimerization interface [polypeptide binding]; other site 313598001296 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313598001297 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 313598001298 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 313598001299 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 313598001300 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 313598001301 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 313598001302 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 313598001303 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313598001304 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313598001305 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313598001306 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313598001307 hexamer interface [polypeptide binding]; other site 313598001308 ligand binding site [chemical binding]; other site 313598001309 putative active site [active] 313598001310 NAD(P) binding site [chemical binding]; other site 313598001311 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598001312 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598001313 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 313598001314 DNA binding residues [nucleotide binding] 313598001315 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598001316 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 313598001317 binding surface 313598001318 TPR motif; other site 313598001319 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 313598001320 primosomal protein N' Region: priA; TIGR00595 313598001321 ATP binding site [chemical binding]; other site 313598001322 putative Mg++ binding site [ion binding]; other site 313598001323 helicase superfamily c-terminal domain; Region: HELICc; smart00490 313598001324 ATP-binding site [chemical binding]; other site 313598001325 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313598001326 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313598001327 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 313598001328 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 313598001329 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 313598001330 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 313598001331 S-adenosylmethionine binding site [chemical binding]; other site 313598001332 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 313598001333 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 313598001334 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 313598001335 ATP binding site [chemical binding]; other site 313598001336 putative Mg++ binding site [ion binding]; other site 313598001337 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 313598001338 nucleotide binding region [chemical binding]; other site 313598001339 ATP-binding site [chemical binding]; other site 313598001340 RQC domain; Region: RQC; pfam09382 313598001341 HRDC domain; Region: HRDC; pfam00570 313598001342 KpsF/GutQ family protein; Region: kpsF; TIGR00393 313598001343 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 313598001344 putative active site [active] 313598001345 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 313598001346 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 313598001347 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 313598001348 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 313598001349 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 313598001350 Walker A/P-loop; other site 313598001351 ATP binding site [chemical binding]; other site 313598001352 Q-loop/lid; other site 313598001353 ABC transporter signature motif; other site 313598001354 Walker B; other site 313598001355 D-loop; other site 313598001356 H-loop/switch region; other site 313598001357 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_17; cd08356 313598001358 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313598001359 GAF domain; Region: GAF; pfam01590 313598001360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598001361 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 313598001362 dimer interface [polypeptide binding]; other site 313598001363 phosphorylation site [posttranslational modification] 313598001364 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 313598001365 ATP binding site [chemical binding]; other site 313598001366 Mg2+ binding site [ion binding]; other site 313598001367 G-X-G motif; other site 313598001368 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 313598001369 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 313598001370 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 313598001371 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313598001372 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 313598001373 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598001374 Coenzyme A binding pocket [chemical binding]; other site 313598001375 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313598001376 Dehydroquinase class II; Region: DHquinase_II; pfam01220 313598001377 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 313598001378 active site 313598001379 trimer interface [polypeptide binding]; other site 313598001380 dimer interface [polypeptide binding]; other site 313598001381 TM2 domain; Region: TM2; pfam05154 313598001382 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 313598001383 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 313598001384 active site 313598001385 Int/Topo IB signature motif; other site 313598001386 phosphodiesterase; Provisional; Region: PRK12704 313598001387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598001388 Zn2+ binding site [ion binding]; other site 313598001389 Mg2+ binding site [ion binding]; other site 313598001390 Cell division protein ZapA; Region: ZapA; pfam05164 313598001391 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598001392 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313598001393 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598001394 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598001395 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 313598001396 Domain of unknown function DUF20; Region: UPF0118; pfam01594 313598001397 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 313598001398 Cupin domain; Region: Cupin_2; pfam07883 313598001399 AAA-like domain; Region: AAA_10; pfam12846 313598001400 Zonular occludens toxin (Zot); Region: Zot; cl17485 313598001401 beta-carotene hydroxylase; Region: PLN02601 313598001402 Protein of unknown function (DUF422); Region: DUF422; cl00991 313598001403 phytoene desaturase; Region: crtI_fam; TIGR02734 313598001404 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598001405 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598001406 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 313598001407 active site 313598001408 phosphorylation site [posttranslational modification] 313598001409 intermolecular recognition site; other site 313598001410 dimerization interface [polypeptide binding]; other site 313598001411 LytTr DNA-binding domain; Region: LytTR; smart00850 313598001412 2TM domain; Region: 2TM; pfam13239 313598001413 2TM domain; Region: 2TM; pfam13239 313598001414 2TM domain; Region: 2TM; pfam13239 313598001415 2TM domain; Region: 2TM; pfam13239 313598001416 Histidine kinase; Region: His_kinase; pfam06580 313598001417 2TM domain; Region: 2TM; pfam13239 313598001418 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313598001419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598001420 Coenzyme A binding pocket [chemical binding]; other site 313598001421 argininosuccinate synthase; Provisional; Region: PRK13820 313598001422 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 313598001423 Ligand Binding Site [chemical binding]; other site 313598001424 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 313598001425 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313598001426 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 313598001427 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 313598001428 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 313598001429 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 313598001430 inhibitor-cofactor binding pocket; inhibition site 313598001431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598001432 catalytic residue [active] 313598001433 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 313598001434 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313598001435 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313598001436 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 313598001437 nucleotide binding site [chemical binding]; other site 313598001438 N-acetyl-L-glutamate binding site [chemical binding]; other site 313598001439 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 313598001440 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 313598001441 metal binding site [ion binding]; metal-binding site 313598001442 dimer interface [polypeptide binding]; other site 313598001443 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 313598001444 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 313598001445 active sites [active] 313598001446 tetramer interface [polypeptide binding]; other site 313598001447 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 313598001448 lycopene cyclase; Region: lycopene_cycl; TIGR01789 313598001449 beta-carotene hydroxylase; Region: PLN02601 313598001450 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 313598001451 active site lid residues [active] 313598001452 substrate binding pocket [chemical binding]; other site 313598001453 catalytic residues [active] 313598001454 substrate-Mg2+ binding site; other site 313598001455 aspartate-rich region 1; other site 313598001456 aspartate-rich region 2; other site 313598001457 phytoene desaturase; Region: crtI_fam; TIGR02734 313598001458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598001459 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 313598001460 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313598001461 DNA binding residues [nucleotide binding] 313598001462 B12 binding domain; Region: B12-binding_2; pfam02607 313598001463 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313598001464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598001465 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 313598001466 DNA binding residues [nucleotide binding] 313598001467 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 313598001468 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 313598001469 tetramer interface [polypeptide binding]; other site 313598001470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598001471 catalytic residue [active] 313598001472 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313598001473 active site 313598001474 peptide chain release factor 2; Validated; Region: prfB; PRK00578 313598001475 PCRF domain; Region: PCRF; pfam03462 313598001476 RF-1 domain; Region: RF-1; pfam00472 313598001477 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 313598001478 ArsC family; Region: ArsC; pfam03960 313598001479 catalytic residues [active] 313598001480 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598001481 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598001482 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 313598001483 fumarate hydratase; Reviewed; Region: fumC; PRK00485 313598001484 Class II fumarases; Region: Fumarase_classII; cd01362 313598001485 active site 313598001486 tetramer interface [polypeptide binding]; other site 313598001487 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 313598001488 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 313598001489 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 313598001490 G1 box; other site 313598001491 putative GEF interaction site [polypeptide binding]; other site 313598001492 GTP/Mg2+ binding site [chemical binding]; other site 313598001493 Switch I region; other site 313598001494 G2 box; other site 313598001495 G3 box; other site 313598001496 Switch II region; other site 313598001497 G4 box; other site 313598001498 G5 box; other site 313598001499 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 313598001500 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 313598001501 Proline dehydrogenase; Region: Pro_dh; cl03282 313598001502 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 313598001503 active site 313598001504 dimer interface [polypeptide binding]; other site 313598001505 metal binding site [ion binding]; metal-binding site 313598001506 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 313598001507 DNA-binding site [nucleotide binding]; DNA binding site 313598001508 RNA-binding motif; other site 313598001509 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313598001510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598001511 Walker A/P-loop; other site 313598001512 ATP binding site [chemical binding]; other site 313598001513 Q-loop/lid; other site 313598001514 ABC transporter signature motif; other site 313598001515 Walker B; other site 313598001516 D-loop; other site 313598001517 H-loop/switch region; other site 313598001518 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 313598001519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313598001520 Outer membrane efflux protein; Region: OEP; pfam02321 313598001521 Outer membrane efflux protein; Region: OEP; pfam02321 313598001522 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313598001523 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 313598001524 non-specific DNA binding site [nucleotide binding]; other site 313598001525 salt bridge; other site 313598001526 sequence-specific DNA binding site [nucleotide binding]; other site 313598001527 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598001528 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 313598001529 translocation protein TolB; Provisional; Region: tolB; PRK02889 313598001530 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313598001531 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 313598001532 Amidohydrolase family; Region: Amidohydro_1; pfam01979 313598001533 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 313598001534 putative active site [active] 313598001535 putative catalytic site [active] 313598001536 Predicted membrane protein [Function unknown]; Region: COG2860 313598001537 UPF0126 domain; Region: UPF0126; pfam03458 313598001538 UPF0126 domain; Region: UPF0126; pfam03458 313598001539 helicase 45; Provisional; Region: PTZ00424 313598001540 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 313598001541 ATP binding site [chemical binding]; other site 313598001542 Mg++ binding site [ion binding]; other site 313598001543 motif III; other site 313598001544 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 313598001545 nucleotide binding region [chemical binding]; other site 313598001546 ATP-binding site [chemical binding]; other site 313598001547 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 313598001548 active site 313598001549 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313598001550 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 313598001551 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 313598001552 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 313598001553 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313598001554 HlyD family secretion protein; Region: HlyD_3; pfam13437 313598001555 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313598001556 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313598001557 FtsX-like permease family; Region: FtsX; pfam02687 313598001558 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313598001559 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313598001560 FtsX-like permease family; Region: FtsX; pfam02687 313598001561 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313598001562 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313598001563 Walker A/P-loop; other site 313598001564 ATP binding site [chemical binding]; other site 313598001565 Q-loop/lid; other site 313598001566 ABC transporter signature motif; other site 313598001567 Walker B; other site 313598001568 D-loop; other site 313598001569 H-loop/switch region; other site 313598001570 Protein of unknown function, DUF393; Region: DUF393; pfam04134 313598001571 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 313598001572 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 313598001573 motif II; other site 313598001574 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598001575 Peptidase family M1; Region: Peptidase_M1; pfam01433 313598001576 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 313598001577 Zn binding site [ion binding]; other site 313598001578 HEAT repeats; Region: HEAT_2; pfam13646 313598001579 HEAT repeats; Region: HEAT_2; pfam13646 313598001580 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313598001581 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313598001582 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598001583 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598001584 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 313598001585 DNA binding residues [nucleotide binding] 313598001586 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598001587 Active site serine [active] 313598001588 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598001589 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313598001590 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 313598001591 Catalytic dyad [active] 313598001592 Patatin-like phospholipase; Region: Patatin; pfam01734 313598001593 active site 313598001594 nucleophile elbow; other site 313598001595 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 313598001596 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313598001597 metal binding site [ion binding]; metal-binding site 313598001598 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313598001599 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598001600 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 313598001601 putative acyl-acceptor binding pocket; other site 313598001602 RmuC family; Region: RmuC; pfam02646 313598001603 CsbD-like; Region: CsbD; cl17424 313598001604 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 313598001605 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 313598001606 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 313598001607 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 313598001608 dimer interface [polypeptide binding]; other site 313598001609 active site 313598001610 glycine-pyridoxal phosphate binding site [chemical binding]; other site 313598001611 folate binding site [chemical binding]; other site 313598001612 fumarylacetoacetase; Region: PLN02856 313598001613 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 313598001614 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313598001615 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598001616 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313598001617 putative acyl-acceptor binding pocket; other site 313598001618 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 313598001619 putative active site [active] 313598001620 putative CoA binding site [chemical binding]; other site 313598001621 nudix motif; other site 313598001622 metal binding site [ion binding]; metal-binding site 313598001623 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 313598001624 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 313598001625 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598001626 active site 313598001627 HIGH motif; other site 313598001628 nucleotide binding site [chemical binding]; other site 313598001629 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 313598001630 KMSKS motif; other site 313598001631 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313598001632 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598001633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598001634 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 313598001635 DNA binding residues [nucleotide binding] 313598001636 membrane ATPase/protein kinase; Provisional; Region: PRK09435 313598001637 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 313598001638 Walker A; other site 313598001639 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 313598001640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598001641 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 313598001642 S-adenosylmethionine binding site [chemical binding]; other site 313598001643 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 313598001644 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 313598001645 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 313598001646 Walker A motif; other site 313598001647 ATP binding site [chemical binding]; other site 313598001648 Walker B motif; other site 313598001649 arginine finger; other site 313598001650 TrkA-N domain; Region: TrkA_N; pfam02254 313598001651 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 313598001652 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 313598001653 ATP binding site [chemical binding]; other site 313598001654 putative Mg++ binding site [ion binding]; other site 313598001655 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 313598001656 nucleotide binding region [chemical binding]; other site 313598001657 ATP-binding site [chemical binding]; other site 313598001658 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 313598001659 RNA binding site [nucleotide binding]; other site 313598001660 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 313598001661 active site 313598001662 dinuclear metal binding site [ion binding]; other site 313598001663 dimerization interface [polypeptide binding]; other site 313598001664 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 313598001665 Tic20-like protein; Region: Tic20; pfam09685 313598001666 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 313598001667 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 313598001668 dimerization interface [polypeptide binding]; other site 313598001669 DPS ferroxidase diiron center [ion binding]; other site 313598001670 ion pore; other site 313598001671 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313598001672 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598001673 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 313598001674 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 313598001675 trmE is a tRNA modification GTPase; Region: trmE; cd04164 313598001676 G1 box; other site 313598001677 GTP/Mg2+ binding site [chemical binding]; other site 313598001678 Switch I region; other site 313598001679 G2 box; other site 313598001680 Switch II region; other site 313598001681 G3 box; other site 313598001682 G4 box; other site 313598001683 G5 box; other site 313598001684 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 313598001685 Response regulator receiver domain; Region: Response_reg; pfam00072 313598001686 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 313598001687 active site 313598001688 phosphorylation site [posttranslational modification] 313598001689 intermolecular recognition site; other site 313598001690 dimerization interface [polypeptide binding]; other site 313598001691 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 313598001692 Ligand binding site; other site 313598001693 Ligand binding site; other site 313598001694 Ligand binding site; other site 313598001695 Putative Catalytic site; other site 313598001696 DXD motif; other site 313598001697 Predicted integral membrane protein [Function unknown]; Region: COG5617 313598001698 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 313598001699 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 313598001700 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598001701 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 313598001702 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313598001703 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313598001704 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 313598001705 binding surface 313598001706 TPR motif; other site 313598001707 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 313598001708 binding surface 313598001709 TPR motif; other site 313598001710 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 313598001711 binding surface 313598001712 TPR motif; other site 313598001713 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 313598001714 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598001715 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 313598001716 PAS domain; Region: PAS_9; pfam13426 313598001717 putative active site [active] 313598001718 heme pocket [chemical binding]; other site 313598001719 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313598001720 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 313598001721 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 313598001722 dimer interface [polypeptide binding]; other site 313598001723 phosphorylation site [posttranslational modification] 313598001724 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 313598001725 ATP binding site [chemical binding]; other site 313598001726 Mg2+ binding site [ion binding]; other site 313598001727 G-X-G motif; other site 313598001728 Heme NO binding; Region: HNOB; pfam07700 313598001729 Response regulator receiver domain; Region: Response_reg; pfam00072 313598001730 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 313598001731 active site 313598001732 phosphorylation site [posttranslational modification] 313598001733 intermolecular recognition site; other site 313598001734 dimerization interface [polypeptide binding]; other site 313598001735 Family description; Region: DsbD_2; pfam13386 313598001736 FixH; Region: FixH; pfam05751 313598001737 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 313598001738 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313598001739 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 313598001740 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 313598001741 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 313598001742 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313598001743 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 313598001744 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 313598001745 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 313598001746 Low-spin heme binding site [chemical binding]; other site 313598001747 Putative water exit pathway; other site 313598001748 Binuclear center (active site) [active] 313598001749 Putative proton exit pathway; other site 313598001750 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 313598001751 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 313598001752 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 313598001753 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 313598001754 FeS/SAM binding site; other site 313598001755 HemN C-terminal domain; Region: HemN_C; pfam06969 313598001756 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 313598001757 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313598001758 Heavy-metal-associated domain; Region: HMA; pfam00403 313598001759 metal-binding site [ion binding] 313598001760 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313598001761 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 313598001762 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313598001763 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 313598001764 ligand binding site [chemical binding]; other site 313598001765 flexible hinge region; other site 313598001766 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 313598001767 putative switch regulator; other site 313598001768 non-specific DNA interactions [nucleotide binding]; other site 313598001769 DNA binding site [nucleotide binding] 313598001770 sequence specific DNA binding site [nucleotide binding]; other site 313598001771 putative cAMP binding site [chemical binding]; other site 313598001772 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598001773 Family of unknown function (DUF490); Region: DUF490; pfam04357 313598001774 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 313598001775 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313598001776 acyl-activating enzyme (AAE) consensus motif; other site 313598001777 AMP binding site [chemical binding]; other site 313598001778 active site 313598001779 CoA binding site [chemical binding]; other site 313598001780 CAAX protease self-immunity; Region: Abi; pfam02517 313598001781 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 313598001782 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 313598001783 active site 313598001784 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 313598001785 hydrophobic ligand binding site; other site 313598001786 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 313598001787 UbiA prenyltransferase family; Region: UbiA; pfam01040 313598001788 Bacterial PH domain; Region: DUF304; pfam03703 313598001789 Bacterial PH domain; Region: DUF304; pfam03703 313598001790 Bacterial PH domain; Region: DUF304; pfam03703 313598001791 Bacterial PH domain; Region: DUF304; cl01348 313598001792 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313598001793 Cysteine-rich domain; Region: CCG; pfam02754 313598001794 Cysteine-rich domain; Region: CCG; pfam02754 313598001795 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 313598001796 4Fe-4S binding domain; Region: Fer4; cl02805 313598001797 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313598001798 mce related protein; Region: MCE; pfam02470 313598001799 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 313598001800 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 313598001801 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 313598001802 active site 313598001803 metal binding site [ion binding]; metal-binding site 313598001804 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 313598001805 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 313598001806 homotrimer interaction site [polypeptide binding]; other site 313598001807 putative active site [active] 313598001808 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 313598001809 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313598001810 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313598001811 6-phosphofructokinase; Provisional; Region: PRK03202 313598001812 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 313598001813 active site 313598001814 ADP/pyrophosphate binding site [chemical binding]; other site 313598001815 dimerization interface [polypeptide binding]; other site 313598001816 allosteric effector site; other site 313598001817 fructose-1,6-bisphosphate binding site; other site 313598001818 Family of unknown function (DUF490); Region: DUF490; pfam04357 313598001819 UGMP family protein; Validated; Region: PRK09604 313598001820 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313598001821 Sulfatase; Region: Sulfatase; pfam00884 313598001822 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 313598001823 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 313598001824 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 313598001825 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 313598001826 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 313598001827 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313598001828 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 313598001829 tetramer interface [polypeptide binding]; other site 313598001830 TPP-binding site [chemical binding]; other site 313598001831 heterodimer interface [polypeptide binding]; other site 313598001832 phosphorylation loop region [posttranslational modification] 313598001833 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 313598001834 E3 interaction surface; other site 313598001835 lipoyl attachment site [posttranslational modification]; other site 313598001836 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313598001837 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 313598001838 E3 interaction surface; other site 313598001839 lipoyl attachment site [posttranslational modification]; other site 313598001840 e3 binding domain; Region: E3_binding; pfam02817 313598001841 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313598001842 Beta-lactamase; Region: Beta-lactamase; pfam00144 313598001843 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313598001844 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 313598001845 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 313598001846 generic binding surface II; other site 313598001847 ssDNA binding site; other site 313598001848 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 313598001849 ATP binding site [chemical binding]; other site 313598001850 putative Mg++ binding site [ion binding]; other site 313598001851 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 313598001852 nucleotide binding region [chemical binding]; other site 313598001853 ATP-binding site [chemical binding]; other site 313598001854 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 313598001855 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313598001856 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598001857 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313598001858 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 313598001859 S-adenosylmethionine binding site [chemical binding]; other site 313598001860 Endonuclease I; Region: Endonuclease_1; cl01003 313598001861 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313598001862 Interdomain contacts; other site 313598001863 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313598001864 Interdomain contacts; other site 313598001865 Cytokine receptor motif; other site 313598001866 Lamin Tail Domain; Region: LTD; pfam00932 313598001867 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598001868 Endonuclease I; Region: Endonuclease_1; pfam04231 313598001869 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598001870 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 313598001871 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 313598001872 dimerization interface [polypeptide binding]; other site 313598001873 ATP binding site [chemical binding]; other site 313598001874 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 313598001875 dimerization interface [polypeptide binding]; other site 313598001876 ATP binding site [chemical binding]; other site 313598001877 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313598001878 conserved cys residue [active] 313598001879 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 313598001880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 313598001881 Predicted transcriptional regulators [Transcription]; Region: COG1695 313598001882 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 313598001883 PspC domain; Region: PspC; pfam04024 313598001884 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313598001885 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313598001886 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 313598001887 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598001888 catalytic residues [active] 313598001889 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 313598001890 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 313598001891 EamA-like transporter family; Region: EamA; pfam00892 313598001892 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313598001893 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313598001894 Predicted permeases [General function prediction only]; Region: COG0795 313598001895 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 313598001896 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 313598001897 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313598001898 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 313598001899 RNA binding surface [nucleotide binding]; other site 313598001900 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 313598001901 probable active site [active] 313598001902 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 313598001903 excinuclease ABC subunit B; Provisional; Region: PRK05298 313598001904 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 313598001905 ATP binding site [chemical binding]; other site 313598001906 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 313598001907 nucleotide binding region [chemical binding]; other site 313598001908 ATP-binding site [chemical binding]; other site 313598001909 Ultra-violet resistance protein B; Region: UvrB; pfam12344 313598001910 UvrB/uvrC motif; Region: UVR; pfam02151 313598001911 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 313598001912 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 313598001913 CoA-ligase; Region: Ligase_CoA; pfam00549 313598001914 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313598001915 putative ligand binding site [chemical binding]; other site 313598001916 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313598001917 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313598001918 Walker A/P-loop; other site 313598001919 ATP binding site [chemical binding]; other site 313598001920 Q-loop/lid; other site 313598001921 ABC transporter signature motif; other site 313598001922 Walker B; other site 313598001923 D-loop; other site 313598001924 H-loop/switch region; other site 313598001925 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 313598001926 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 313598001927 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 313598001928 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313598001929 dihydroorotase; Validated; Region: pyrC; PRK09357 313598001930 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 313598001931 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 313598001932 active site 313598001933 putative hydrolase; Provisional; Region: PRK11460 313598001934 Predicted esterase [General function prediction only]; Region: COG0400 313598001935 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313598001936 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 313598001937 dimer interface [polypeptide binding]; other site 313598001938 phosphorylation site [posttranslational modification] 313598001939 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 313598001940 ATP binding site [chemical binding]; other site 313598001941 Mg2+ binding site [ion binding]; other site 313598001942 G-X-G motif; other site 313598001943 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313598001944 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 313598001945 active site 313598001946 phosphorylation site [posttranslational modification] 313598001947 intermolecular recognition site; other site 313598001948 dimerization interface [polypeptide binding]; other site 313598001949 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 313598001950 Rab subfamily motif 1 (RabSF1); other site 313598001951 G1 box; other site 313598001952 GTP/Mg2+ binding site [chemical binding]; other site 313598001953 Rab subfamily motif 2 (RabSF2); other site 313598001954 Switch I region; other site 313598001955 G2 box; other site 313598001956 effector interaction site; other site 313598001957 GDI interaction site; other site 313598001958 Rab family motif 1 (RabF1); other site 313598001959 GEF interaction site [polypeptide binding]; other site 313598001960 Rab family motif 2 (RabF2); other site 313598001961 G3 box; other site 313598001962 Switch II region; other site 313598001963 Rab family motif 3 (RabF3); other site 313598001964 Rab family motif 4 (RabF4); other site 313598001965 Rab family motif 5 (RabF5); other site 313598001966 Rab subfamily motif 3 (RabSF3); other site 313598001967 G4 box; other site 313598001968 G5 box; other site 313598001969 putative hydrolase; Provisional; Region: PRK02113 313598001970 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 313598001971 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598001972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598001973 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 313598001974 DNA binding residues [nucleotide binding] 313598001975 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 313598001976 Chloramphenicol acetyltransferase; Region: CAT; smart01059 313598001977 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 313598001978 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 313598001979 motif II; other site 313598001980 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 313598001981 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 313598001982 Ligand binding site; other site 313598001983 oligomer interface; other site 313598001984 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 313598001985 active site 313598001986 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 313598001987 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 313598001988 active site 313598001989 metal binding site [ion binding]; metal-binding site 313598001990 nudix motif; other site 313598001991 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 313598001992 active site 313598001993 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 313598001994 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 313598001995 G1 box; other site 313598001996 putative GEF interaction site [polypeptide binding]; other site 313598001997 GTP/Mg2+ binding site [chemical binding]; other site 313598001998 Switch I region; other site 313598001999 G2 box; other site 313598002000 G3 box; other site 313598002001 Switch II region; other site 313598002002 G4 box; other site 313598002003 G5 box; other site 313598002004 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 313598002005 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 313598002006 active site 313598002007 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 313598002008 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313598002009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598002010 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 313598002011 dimer interface [polypeptide binding]; other site 313598002012 phosphorylation site [posttranslational modification] 313598002013 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 313598002014 ATP binding site [chemical binding]; other site 313598002015 Mg2+ binding site [ion binding]; other site 313598002016 G-X-G motif; other site 313598002017 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002018 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 313598002019 active site 313598002020 phosphorylation site [posttranslational modification] 313598002021 intermolecular recognition site; other site 313598002022 dimerization interface [polypeptide binding]; other site 313598002023 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 313598002024 dimer interface [polypeptide binding]; other site 313598002025 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 313598002026 ATP binding site [chemical binding]; other site 313598002027 Mg2+ binding site [ion binding]; other site 313598002028 G-X-G motif; other site 313598002029 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002030 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 313598002031 active site 313598002032 phosphorylation site [posttranslational modification] 313598002033 intermolecular recognition site; other site 313598002034 dimerization interface [polypeptide binding]; other site 313598002035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598002036 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 313598002037 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 313598002038 dimer interface [polypeptide binding]; other site 313598002039 phosphorylation site [posttranslational modification] 313598002040 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 313598002041 ATP binding site [chemical binding]; other site 313598002042 Mg2+ binding site [ion binding]; other site 313598002043 G-X-G motif; other site 313598002044 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002045 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 313598002046 active site 313598002047 phosphorylation site [posttranslational modification] 313598002048 intermolecular recognition site; other site 313598002049 dimerization interface [polypeptide binding]; other site 313598002050 Signal peptide peptidase; Region: Peptidase_A22B; cl01342 313598002051 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598002052 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 313598002053 dimer interface [polypeptide binding]; other site 313598002054 phosphorylation site [posttranslational modification] 313598002055 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 313598002056 ATP binding site [chemical binding]; other site 313598002057 Mg2+ binding site [ion binding]; other site 313598002058 G-X-G motif; other site 313598002059 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002060 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 313598002061 active site 313598002062 phosphorylation site [posttranslational modification] 313598002063 intermolecular recognition site; other site 313598002064 dimerization interface [polypeptide binding]; other site 313598002065 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 313598002066 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313598002067 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 313598002068 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 313598002069 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 313598002070 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 313598002071 tartrate dehydrogenase; Region: TTC; TIGR02089 313598002072 (R)-citramalate synthase; Provisional; Region: PRK09389 313598002073 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 313598002074 active site 313598002075 catalytic residues [active] 313598002076 metal binding site [ion binding]; metal-binding site 313598002077 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 313598002078 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 313598002079 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 313598002080 substrate binding site [chemical binding]; other site 313598002081 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 313598002082 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 313598002083 substrate binding site [chemical binding]; other site 313598002084 ligand binding site [chemical binding]; other site 313598002085 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 313598002086 TPR motif; other site 313598002087 binding surface 313598002088 metal-dependent hydrolase; Provisional; Region: PRK13291 313598002089 DinB superfamily; Region: DinB_2; pfam12867 313598002090 Protein of unknown function (DUF962); Region: DUF962; cl01879 313598002091 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 313598002092 dimer interface [polypeptide binding]; other site 313598002093 putative tRNA-binding site [nucleotide binding]; other site 313598002094 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 313598002095 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313598002096 putative active site [active] 313598002097 Zn binding site [ion binding]; other site 313598002098 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 313598002099 active site 313598002100 catalytic residues [active] 313598002101 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002102 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 313598002103 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 313598002104 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002105 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 313598002106 FAD binding domain; Region: FAD_binding_4; pfam01565 313598002107 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313598002108 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313598002109 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 313598002110 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598002111 ligand binding site [chemical binding]; other site 313598002112 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 313598002113 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598002114 active site 313598002115 HIGH motif; other site 313598002116 nucleotide binding site [chemical binding]; other site 313598002117 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313598002118 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 313598002119 active site 313598002120 KMSKS motif; other site 313598002121 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 313598002122 tRNA binding surface [nucleotide binding]; other site 313598002123 anticodon binding site; other site 313598002124 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 313598002125 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313598002126 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 313598002127 catalytic motif [active] 313598002128 Catalytic residue [active] 313598002129 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 313598002130 aspartate aminotransferase; Provisional; Region: PRK07568 313598002131 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 313598002132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598002133 homodimer interface [polypeptide binding]; other site 313598002134 catalytic residue [active] 313598002135 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 313598002136 FAD binding domain; Region: FAD_binding_4; pfam01565 313598002137 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 313598002138 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 313598002139 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 313598002140 Cu(I) binding site [ion binding]; other site 313598002141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598002142 YHYH protein; Region: YHYH; pfam14240 313598002143 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 313598002144 Ca2+ binding site [ion binding]; other site 313598002145 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 313598002146 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 313598002147 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 313598002148 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598002149 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 313598002150 DNA binding residues [nucleotide binding] 313598002151 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313598002152 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 313598002153 active site 313598002154 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598002155 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 313598002156 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313598002157 lipoyl synthase; Provisional; Region: PRK05481 313598002158 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 313598002159 FeS/SAM binding site; other site 313598002160 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 313598002161 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 313598002162 dimer interface [polypeptide binding]; other site 313598002163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598002164 catalytic residue [active] 313598002165 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 313598002166 Domain of unknown function (DUF897); Region: DUF897; pfam05982 313598002167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 313598002168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313598002169 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 313598002170 dimerization interface [polypeptide binding]; other site 313598002171 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313598002172 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313598002173 FtsX-like permease family; Region: FtsX; pfam02687 313598002174 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 313598002175 Flagellin N-methylase; Region: FliB; pfam03692 313598002176 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 313598002177 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 313598002178 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598002179 active site 313598002180 HIGH motif; other site 313598002181 nucleotide binding site [chemical binding]; other site 313598002182 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 313598002183 KMSK motif region; other site 313598002184 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313598002185 tRNA binding surface [nucleotide binding]; other site 313598002186 anticodon binding site; other site 313598002187 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 313598002188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598002189 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598002190 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313598002191 HEAT repeats; Region: HEAT_2; pfam13646 313598002192 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313598002193 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 313598002194 DXD motif; other site 313598002195 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 313598002196 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 313598002197 TPR motif; other site 313598002198 binding surface 313598002199 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 313598002200 TPR motif; other site 313598002201 binding surface 313598002202 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313598002203 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 313598002204 TPR motif; other site 313598002205 binding surface 313598002206 TPR repeat; Region: TPR_11; pfam13414 313598002207 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 313598002208 binding surface 313598002209 TPR motif; other site 313598002210 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313598002211 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 313598002212 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313598002213 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 313598002214 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 313598002215 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 313598002216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 313598002217 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313598002218 putative active site [active] 313598002219 Zn binding site [ion binding]; other site 313598002220 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 313598002221 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 313598002222 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313598002223 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 313598002224 FeS/SAM binding site; other site 313598002225 amidase; Provisional; Region: PRK06707 313598002226 Amidase; Region: Amidase; cl11426 313598002227 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 313598002228 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 313598002229 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 313598002230 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 313598002231 ribosomal protein L33; Region: rpl33; CHL00104 313598002232 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 313598002233 competence damage-inducible protein A; Provisional; Region: PRK00549 313598002234 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 313598002235 putative MPT binding site; other site 313598002236 Competence-damaged protein; Region: CinA; pfam02464 313598002237 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 313598002238 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 313598002239 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 313598002240 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 313598002241 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 313598002242 putative active site [active] 313598002243 putative substrate binding site [chemical binding]; other site 313598002244 putative cosubstrate binding site; other site 313598002245 catalytic site [active] 313598002246 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 313598002247 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 313598002248 substrate binding site [chemical binding]; other site 313598002249 oxyanion hole (OAH) forming residues; other site 313598002250 trimer interface [polypeptide binding]; other site 313598002251 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313598002252 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 313598002253 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 313598002254 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 313598002255 dimer interface [polypeptide binding]; other site 313598002256 tetramer interface [polypeptide binding]; other site 313598002257 PYR/PP interface [polypeptide binding]; other site 313598002258 TPP binding site [chemical binding]; other site 313598002259 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 313598002260 TPP-binding site; other site 313598002261 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 313598002262 active site 313598002263 intersubunit interactions; other site 313598002264 catalytic residue [active] 313598002265 short chain dehydrogenase; Validated; Region: PRK06182 313598002266 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 313598002267 NADP binding site [chemical binding]; other site 313598002268 active site 313598002269 steroid binding site; other site 313598002270 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313598002271 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313598002272 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 313598002273 Ligand binding site; other site 313598002274 Putative Catalytic site; other site 313598002275 DXD motif; other site 313598002276 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 313598002277 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 313598002278 active site 313598002279 substrate binding site [chemical binding]; other site 313598002280 metal binding site [ion binding]; metal-binding site 313598002281 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313598002282 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 313598002283 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 313598002284 Walker A/P-loop; other site 313598002285 ATP binding site [chemical binding]; other site 313598002286 Q-loop/lid; other site 313598002287 ABC transporter signature motif; other site 313598002288 Walker B; other site 313598002289 D-loop; other site 313598002290 H-loop/switch region; other site 313598002291 pyruvate carboxylase; Reviewed; Region: PRK12999 313598002292 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313598002293 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313598002294 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313598002295 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 313598002296 active site 313598002297 catalytic residues [active] 313598002298 metal binding site [ion binding]; metal-binding site 313598002299 homodimer binding site [polypeptide binding]; other site 313598002300 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 313598002301 carboxyltransferase (CT) interaction site; other site 313598002302 biotinylation site [posttranslational modification]; other site 313598002303 Protein of unknown function (DUF1647); Region: DUF1647; pfam07801 313598002304 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 313598002305 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 313598002306 active site 313598002307 NTP binding site [chemical binding]; other site 313598002308 metal binding triad [ion binding]; metal-binding site 313598002309 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 313598002310 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598002311 Zn2+ binding site [ion binding]; other site 313598002312 Mg2+ binding site [ion binding]; other site 313598002313 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 313598002314 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 313598002315 GDP-Fucose binding site [chemical binding]; other site 313598002316 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 313598002317 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 313598002318 putative metal binding site; other site 313598002319 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 313598002320 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 313598002321 trimer interface [polypeptide binding]; other site 313598002322 active site 313598002323 substrate binding site [chemical binding]; other site 313598002324 CoA binding site [chemical binding]; other site 313598002325 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 313598002326 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 313598002327 active site 313598002328 catalytic residues [active] 313598002329 metal binding site [ion binding]; metal-binding site 313598002330 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313598002331 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 313598002332 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 313598002333 homodimer interface [polypeptide binding]; other site 313598002334 metal binding site [ion binding]; metal-binding site 313598002335 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 313598002336 homodimer interface [polypeptide binding]; other site 313598002337 active site 313598002338 putative chemical substrate binding site [chemical binding]; other site 313598002339 metal binding site [ion binding]; metal-binding site 313598002340 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 313598002341 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313598002342 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598002343 Found in ATP-dependent protease La (LON); Region: LON; smart00464 313598002344 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 313598002345 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 313598002346 Walker A motif; other site 313598002347 ATP binding site [chemical binding]; other site 313598002348 Walker B motif; other site 313598002349 arginine finger; other site 313598002350 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 313598002351 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 313598002352 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598002353 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598002354 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 313598002355 DNA binding residues [nucleotide binding] 313598002356 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313598002357 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 313598002358 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 313598002359 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif...; Region: LbH_unknown; cd05635 313598002360 Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins; Region: Reeler; cd08544 313598002361 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002362 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 313598002363 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313598002364 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 313598002365 E3 interaction surface; other site 313598002366 lipoyl attachment site [posttranslational modification]; other site 313598002367 e3 binding domain; Region: E3_binding; pfam02817 313598002368 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313598002369 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 313598002370 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 313598002371 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 313598002372 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 313598002373 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 313598002374 substrate binding site [chemical binding]; other site 313598002375 active site 313598002376 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 313598002377 four helix bundle protein; Region: TIGR02436 313598002378 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 313598002379 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 313598002380 inhibitor-cofactor binding pocket; inhibition site 313598002381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598002382 catalytic residue [active] 313598002383 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 313598002384 dimer interface [polypeptide binding]; other site 313598002385 active site 313598002386 Schiff base residues; other site 313598002387 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 313598002388 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 313598002389 domain interfaces; other site 313598002390 active site 313598002391 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cl00365 313598002392 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 313598002393 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 313598002394 active site 313598002395 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 313598002396 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 313598002397 tRNA; other site 313598002398 putative tRNA binding site [nucleotide binding]; other site 313598002399 putative NADP binding site [chemical binding]; other site 313598002400 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 313598002401 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313598002402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598002403 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598002404 ferrochelatase; Reviewed; Region: hemH; PRK00035 313598002405 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 313598002406 C-terminal domain interface [polypeptide binding]; other site 313598002407 active site 313598002408 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 313598002409 active site 313598002410 N-terminal domain interface [polypeptide binding]; other site 313598002411 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 313598002412 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 313598002413 ATP binding site [chemical binding]; other site 313598002414 Mg2+ binding site [ion binding]; other site 313598002415 G-X-G motif; other site 313598002416 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002417 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 313598002418 active site 313598002419 phosphorylation site [posttranslational modification] 313598002420 intermolecular recognition site; other site 313598002421 dimerization interface [polypeptide binding]; other site 313598002422 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 313598002423 CheB methylesterase; Region: CheB_methylest; pfam01339 313598002424 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 313598002425 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 313598002426 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 313598002427 PAS domain; Region: PAS_10; pfam13596 313598002428 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313598002429 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 313598002430 putative active site [active] 313598002431 heme pocket [chemical binding]; other site 313598002432 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 313598002433 putative active site [active] 313598002434 heme pocket [chemical binding]; other site 313598002435 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 313598002436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598002437 dimer interface [polypeptide binding]; other site 313598002438 phosphorylation site [posttranslational modification] 313598002439 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 313598002440 ATP binding site [chemical binding]; other site 313598002441 Mg2+ binding site [ion binding]; other site 313598002442 G-X-G motif; other site 313598002443 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313598002444 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 313598002445 active site 313598002446 phosphorylation site [posttranslational modification] 313598002447 intermolecular recognition site; other site 313598002448 dimerization interface [polypeptide binding]; other site 313598002449 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313598002450 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 313598002451 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 313598002452 Tetramer interface [polypeptide binding]; other site 313598002453 active site 313598002454 FMN-binding site [chemical binding]; other site 313598002455 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 313598002456 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313598002457 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313598002458 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313598002459 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 313598002460 TPR motif; other site 313598002461 binding surface 313598002462 Sulfatase; Region: Sulfatase; cl17466 313598002463 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 313598002464 TPR motif; other site 313598002465 binding surface 313598002466 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313598002467 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 313598002468 DXD motif; other site 313598002469 Response regulator receiver domain; Region: Response_reg; pfam00072 313598002470 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 313598002471 active site 313598002472 phosphorylation site [posttranslational modification] 313598002473 intermolecular recognition site; other site 313598002474 dimerization interface [polypeptide binding]; other site 313598002475 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 313598002476 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 313598002477 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 313598002478 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313598002479 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 313598002480 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 313598002481 putative active site [active] 313598002482 Zn binding site [ion binding]; other site 313598002483 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 313598002484 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 313598002485 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 313598002486 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 313598002487 HlyD family secretion protein; Region: HlyD_2; pfam12700 313598002488 HlyD family secretion protein; Region: HlyD_3; pfam13437 313598002489 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313598002490 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313598002491 Outer membrane efflux protein; Region: OEP; pfam02321 313598002492 Outer membrane efflux protein; Region: OEP; pfam02321 313598002493 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598002494 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 313598002495 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598002496 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313598002497 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 313598002498 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 313598002499 putative active site [active] 313598002500 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 313598002501 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 313598002502 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 313598002503 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 313598002504 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598002505 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 313598002506 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 313598002507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598002508 Walker A/P-loop; other site 313598002509 ATP binding site [chemical binding]; other site 313598002510 Q-loop/lid; other site 313598002511 ABC transporter signature motif; other site 313598002512 Walker B; other site 313598002513 D-loop; other site 313598002514 H-loop/switch region; other site 313598002515 ABC transporter; Region: ABC_tran_2; pfam12848 313598002516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598002517 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 313598002518 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 313598002519 active site 313598002520 FMN binding site [chemical binding]; other site 313598002521 2,4-decadienoyl-CoA binding site; other site 313598002522 catalytic residue [active] 313598002523 4Fe-4S cluster binding site [ion binding]; other site 313598002524 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 313598002525 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 313598002526 clavulanic acid dehydrogenase (CAD), classical (c) SDR; Region: CAD_SDR_c; cd08934 313598002527 NADP binding site [chemical binding]; other site 313598002528 homotetramer interface [polypeptide binding]; other site 313598002529 homodimer interface [polypeptide binding]; other site 313598002530 active site 313598002531 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313598002532 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 313598002533 NAD(P) binding site [chemical binding]; other site 313598002534 catalytic residues [active] 313598002535 Pirin-related protein [General function prediction only]; Region: COG1741 313598002536 Pirin; Region: Pirin; pfam02678 313598002537 Pirin; Region: Pirin; pfam02678 313598002538 Pirin-related protein [General function prediction only]; Region: COG1741 313598002539 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 313598002540 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 313598002541 MarR family; Region: MarR_2; cl17246 313598002542 Glutaredoxin; Region: Glutaredoxin; pfam00462 313598002543 Predicted flavoprotein [General function prediction only]; Region: COG0431 313598002544 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313598002545 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 313598002546 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313598002547 OsmC-like protein; Region: OsmC; pfam02566 313598002548 DoxX-like family; Region: DoxX_2; pfam13564 313598002549 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 313598002550 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 313598002551 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 313598002552 dimer interface [polypeptide binding]; other site 313598002553 ADP-ribose binding site [chemical binding]; other site 313598002554 active site 313598002555 nudix motif; other site 313598002556 metal binding site [ion binding]; metal-binding site 313598002557 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 313598002558 Walker A motif; other site 313598002559 ATP binding site [chemical binding]; other site 313598002560 Walker B motif; other site 313598002561 arginine finger; other site 313598002562 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313598002563 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313598002564 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313598002565 translation initiation factor IF-2; Region: IF-2; TIGR00487 313598002566 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 313598002567 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 313598002568 G1 box; other site 313598002569 putative GEF interaction site [polypeptide binding]; other site 313598002570 GTP/Mg2+ binding site [chemical binding]; other site 313598002571 Switch I region; other site 313598002572 G2 box; other site 313598002573 G3 box; other site 313598002574 Switch II region; other site 313598002575 G4 box; other site 313598002576 G5 box; other site 313598002577 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 313598002578 Translation-initiation factor 2; Region: IF-2; pfam11987 313598002579 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 313598002580 transcription termination factor NusA; Region: NusA; TIGR01953 313598002581 NusA N-terminal domain; Region: NusA_N; pfam08529 313598002582 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 313598002583 RNA binding site [nucleotide binding]; other site 313598002584 homodimer interface [polypeptide binding]; other site 313598002585 NusA-like KH domain; Region: KH_5; pfam13184 313598002586 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 313598002587 G-X-X-G motif; other site 313598002588 Sm and related proteins; Region: Sm_like; cl00259 313598002589 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 313598002590 heptamer interface [polypeptide binding]; other site 313598002591 Sm1 motif; other site 313598002592 hexamer interface [polypeptide binding]; other site 313598002593 RNA binding site [nucleotide binding]; other site 313598002594 Sm2 motif; other site 313598002595 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 313598002596 Ligand Binding Site [chemical binding]; other site 313598002597 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 313598002598 Ligand Binding Site [chemical binding]; other site 313598002599 recombination protein RecR; Reviewed; Region: recR; PRK00076 313598002600 RecR protein; Region: RecR; pfam02132 313598002601 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 313598002602 putative active site [active] 313598002603 putative metal-binding site [ion binding]; other site 313598002604 tetramer interface [polypeptide binding]; other site 313598002605 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 313598002606 Na binding site [ion binding]; other site 313598002607 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 313598002608 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313598002609 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002610 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 313598002611 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002612 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 313598002613 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 313598002614 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 313598002615 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 313598002616 catalytic core [active] 313598002617 exopolyphosphatase; Region: exo_poly_only; TIGR03706 313598002618 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 313598002619 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313598002620 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598002621 ligand binding site [chemical binding]; other site 313598002622 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313598002623 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598002624 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 313598002625 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 313598002626 Uncharacterized conserved protein [Function unknown]; Region: COG0327 313598002627 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 313598002628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 313598002629 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 313598002630 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 313598002631 Putative zinc ribbon domain; Region: DUF164; pfam02591 313598002632 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313598002633 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313598002634 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313598002635 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313598002636 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 313598002637 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 313598002638 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 313598002639 shikimate binding site; other site 313598002640 NAD(P) binding site [chemical binding]; other site 313598002641 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313598002642 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313598002643 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 313598002644 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 313598002645 active site 313598002646 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313598002647 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 313598002648 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 313598002649 P-class dimer interface [polypeptide binding]; other site 313598002650 active site 313598002651 Cu2+ binding site [ion binding]; other site 313598002652 E-class dimer interface [polypeptide binding]; other site 313598002653 Zn2+ binding site [ion binding]; other site 313598002654 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313598002655 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313598002656 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 313598002657 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313598002658 Na binding site [ion binding]; other site 313598002659 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313598002660 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313598002661 DNA polymerase III subunit beta; Validated; Region: PRK05643 313598002662 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 313598002663 putative DNA binding surface [nucleotide binding]; other site 313598002664 dimer interface [polypeptide binding]; other site 313598002665 beta-clamp/clamp loader binding surface; other site 313598002666 beta-clamp/translesion DNA polymerase binding surface; other site 313598002667 Protein of unknown function, DUF479; Region: DUF479; cl01203 313598002668 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 313598002669 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 313598002670 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 313598002671 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598002672 putative metal binding site [ion binding]; other site 313598002673 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 313598002674 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598002675 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598002676 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598002677 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313598002678 protein binding site [polypeptide binding]; other site 313598002679 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 313598002680 Domain interface; other site 313598002681 Peptide binding site; other site 313598002682 Active site tetrad [active] 313598002683 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313598002684 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313598002685 active site 313598002686 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 313598002687 Domain of unknown function DUF20; Region: UPF0118; pfam01594 313598002688 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 313598002689 S-adenosylmethionine binding site [chemical binding]; other site 313598002690 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 313598002691 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 313598002692 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 313598002693 putative molybdopterin cofactor binding site [chemical binding]; other site 313598002694 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 313598002695 putative molybdopterin cofactor binding site; other site 313598002696 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 313598002697 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 313598002698 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 313598002699 active site 313598002700 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 313598002701 mevalonate kinase; Region: mevalon_kin; TIGR00549 313598002702 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 313598002703 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 313598002704 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 313598002705 active site 313598002706 N-terminal sub-domain of the Rel homology domain (RHD); Region: RHD-n; cl08275 313598002707 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 313598002708 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 313598002709 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598002710 Zn2+ binding site [ion binding]; other site 313598002711 Mg2+ binding site [ion binding]; other site 313598002712 acetyl-CoA C-acetyltransferase; Region: PLN02644 313598002713 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 313598002714 dimer interface [polypeptide binding]; other site 313598002715 active site 313598002716 Bacterial SH3 domain; Region: SH3_3; cl17532 313598002717 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 313598002718 NlpC/P60 family; Region: NLPC_P60; pfam00877 313598002719 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 313598002720 binding surface 313598002721 TPR motif; other site 313598002722 TPR repeat; Region: TPR_11; pfam13414 313598002723 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598002724 DNA gyrase subunit A; Validated; Region: PRK05560 313598002725 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 313598002726 CAP-like domain; other site 313598002727 active site 313598002728 primary dimer interface [polypeptide binding]; other site 313598002729 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002732 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313598002735 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 313598002736 Clp amino terminal domain; Region: Clp_N; pfam02861 313598002737 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 313598002738 Walker A motif; other site 313598002739 ATP binding site [chemical binding]; other site 313598002740 Walker B motif; other site 313598002741 arginine finger; other site 313598002742 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 313598002743 Walker A motif; other site 313598002744 ATP binding site [chemical binding]; other site 313598002745 Walker B motif; other site 313598002746 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 313598002747 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 313598002748 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 313598002749 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 313598002750 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 313598002751 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 313598002752 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 313598002753 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 313598002754 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 313598002755 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 313598002756 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 313598002757 DNA binding site [nucleotide binding] 313598002758 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 313598002759 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 313598002760 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 313598002761 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 313598002762 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 313598002763 RPB11 interaction site [polypeptide binding]; other site 313598002764 RPB12 interaction site [polypeptide binding]; other site 313598002765 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 313598002766 RPB3 interaction site [polypeptide binding]; other site 313598002767 RPB1 interaction site [polypeptide binding]; other site 313598002768 RPB11 interaction site [polypeptide binding]; other site 313598002769 RPB10 interaction site [polypeptide binding]; other site 313598002770 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 313598002771 core dimer interface [polypeptide binding]; other site 313598002772 peripheral dimer interface [polypeptide binding]; other site 313598002773 L10 interface [polypeptide binding]; other site 313598002774 L11 interface [polypeptide binding]; other site 313598002775 putative EF-Tu interaction site [polypeptide binding]; other site 313598002776 putative EF-G interaction site [polypeptide binding]; other site 313598002777 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 313598002778 23S rRNA interface [nucleotide binding]; other site 313598002779 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 313598002780 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 313598002781 mRNA/rRNA interface [nucleotide binding]; other site 313598002782 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 313598002783 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 313598002784 23S rRNA interface [nucleotide binding]; other site 313598002785 L7/L12 interface [polypeptide binding]; other site 313598002786 putative thiostrepton binding site; other site 313598002787 L25 interface [polypeptide binding]; other site 313598002788 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 313598002789 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 313598002790 putative homodimer interface [polypeptide binding]; other site 313598002791 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 313598002792 heterodimer interface [polypeptide binding]; other site 313598002793 homodimer interface [polypeptide binding]; other site 313598002794 elongation factor Tu; Reviewed; Region: PRK12735 313598002795 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 313598002796 G1 box; other site 313598002797 GEF interaction site [polypeptide binding]; other site 313598002798 GTP/Mg2+ binding site [chemical binding]; other site 313598002799 Switch I region; other site 313598002800 G2 box; other site 313598002801 G3 box; other site 313598002802 Switch II region; other site 313598002803 G4 box; other site 313598002804 G5 box; other site 313598002805 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 313598002806 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 313598002807 Antibiotic Binding Site [chemical binding]; other site 313598002808 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 313598002809 30S subunit binding site; other site 313598002810 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 313598002811 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 313598002812 active site 313598002813 DNA binding site [nucleotide binding] 313598002814 Int/Topo IB signature motif; other site 313598002815 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 313598002816 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598002817 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313598002818 active site 313598002819 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313598002820 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313598002821 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 313598002822 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 313598002823 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 313598002824 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 313598002825 NADP binding site [chemical binding]; other site 313598002826 active site 313598002827 putative substrate binding site [chemical binding]; other site 313598002828 Ion channel; Region: Ion_trans_2; pfam07885 313598002829 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 313598002830 TrkA-N domain; Region: TrkA_N; pfam02254 313598002831 TrkA-C domain; Region: TrkA_C; pfam02080 313598002832 PspC domain; Region: PspC; cl00864 313598002833 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313598002834 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313598002835 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313598002836 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 313598002837 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 313598002838 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598002839 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313598002840 Zn binding site [ion binding]; other site 313598002841 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 313598002842 tetramer interface [polypeptide binding]; other site 313598002843 TPP-binding site [chemical binding]; other site 313598002844 heterodimer interface [polypeptide binding]; other site 313598002845 phosphorylation loop region [posttranslational modification] 313598002846 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313598002847 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 313598002848 PYR/PP interface [polypeptide binding]; other site 313598002849 dimer interface [polypeptide binding]; other site 313598002850 TPP binding site [chemical binding]; other site 313598002851 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313598002852 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313598002853 active site 313598002854 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 313598002855 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 313598002856 dimer interface [polypeptide binding]; other site 313598002857 FMN binding site [chemical binding]; other site 313598002858 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 313598002859 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 313598002860 metal binding site [ion binding]; metal-binding site 313598002861 dimer interface [polypeptide binding]; other site 313598002862 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 313598002863 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 313598002864 P-loop; other site 313598002865 Magnesium ion binding site [ion binding]; other site 313598002866 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 313598002867 Magnesium ion binding site [ion binding]; other site 313598002868 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 313598002869 ParB-like nuclease domain; Region: ParBc; pfam02195 313598002870 dihydrodipicolinate reductase; Provisional; Region: PRK00048 313598002871 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 313598002872 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 313598002873 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 313598002874 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 313598002875 Catalytic site [active] 313598002876 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 313598002877 WbqC-like protein family; Region: WbqC; pfam08889 313598002878 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313598002879 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 313598002880 ligand binding site [chemical binding]; other site 313598002881 flexible hinge region; other site 313598002882 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313598002883 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313598002884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598002885 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 313598002886 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 313598002887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598002888 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 313598002889 active site 313598002890 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 313598002891 homodimer interface [polypeptide binding]; other site 313598002892 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313598002893 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 313598002894 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 313598002895 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 313598002896 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 313598002897 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 313598002898 RNA methyltransferase, RsmE family; Region: TIGR00046 313598002899 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 313598002900 bile acid transporter; Region: bass; TIGR00841 313598002901 Sodium Bile acid symporter family; Region: SBF; cl17470 313598002902 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598002903 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown AAK14816-like; Region: LPLAT_AAK14816-like; cd07992 313598002904 putative acyl-acceptor binding pocket; other site 313598002905 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 313598002906 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 313598002907 Beta-lactamase; Region: Beta-lactamase; cl17358 313598002908 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313598002909 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313598002910 active site 313598002911 catalytic site [active] 313598002912 substrate binding site [chemical binding]; other site 313598002913 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 313598002914 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 313598002915 active site 313598002916 catalytic site [active] 313598002917 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 313598002918 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313598002919 substrate binding site [chemical binding]; other site 313598002920 ATP binding site [chemical binding]; other site 313598002921 putative transporter; Provisional; Region: PRK10484 313598002922 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 313598002923 Na binding site [ion binding]; other site 313598002924 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 313598002925 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 313598002926 Ca binding site [ion binding]; other site 313598002927 active site 313598002928 catalytic site [active] 313598002929 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 313598002930 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 313598002931 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 313598002932 Neutral trehalase Ca2+ binding domain; Region: Trehalase_Ca-bi; pfam07492 313598002933 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 313598002934 Trehalase; Region: Trehalase; cl17346 313598002935 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 313598002936 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598002937 putative substrate translocation pore; other site 313598002938 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 313598002939 putative substrate translocation pore; other site 313598002940 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598002941 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 313598002942 active site 313598002943 Family description; Region: VCBS; pfam13517 313598002944 Family description; Region: VCBS; pfam13517 313598002945 Family description; Region: VCBS; pfam13517 313598002946 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313598002947 Family description; Region: VCBS; pfam13517 313598002948 Family description; Region: VCBS; pfam13517 313598002949 Family description; Region: VCBS; pfam13517 313598002950 Family description; Region: VCBS; pfam13517 313598002951 Family description; Region: VCBS; pfam13517 313598002952 Family description; Region: VCBS; pfam13517 313598002953 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313598002954 Family description; Region: VCBS; pfam13517 313598002955 Family description; Region: VCBS; pfam13517 313598002956 Family description; Region: VCBS; pfam13517 313598002957 Family description; Region: VCBS; pfam13517 313598002958 Family description; Region: VCBS; pfam13517 313598002959 Family description; Region: VCBS; pfam13517 313598002960 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313598002961 Family description; Region: VCBS; pfam13517 313598002962 Family description; Region: VCBS; pfam13517 313598002963 Family description; Region: VCBS; pfam13517 313598002964 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313598002965 SusD family; Region: SusD; pfam07980 313598002966 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598002967 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598002968 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 313598002969 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313598002970 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313598002971 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 313598002972 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313598002973 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313598002974 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313598002975 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 313598002976 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 313598002977 putative substrate translocation pore; other site 313598002978 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313598002979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598002980 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313598002981 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598002982 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313598002983 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313598002984 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 313598002985 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313598002986 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 313598002987 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313598002988 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313598002989 DNA binding site [nucleotide binding] 313598002990 domain linker motif; other site 313598002991 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 313598002992 dimerization interface [polypeptide binding]; other site 313598002993 ligand binding site [chemical binding]; other site 313598002994 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 313598002995 active site 313598002996 catalytic triad [active] 313598002997 oxyanion hole [active] 313598002998 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 313598002999 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 313598003000 catalytic residues [active] 313598003001 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313598003002 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 313598003003 dimer interface [polypeptide binding]; other site 313598003004 decamer (pentamer of dimers) interface [polypeptide binding]; other site 313598003005 catalytic triad [active] 313598003006 peroxidatic and resolving cysteines [active] 313598003007 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 313598003008 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 313598003009 dimer interface [polypeptide binding]; other site 313598003010 active site 313598003011 heme binding site [chemical binding]; other site 313598003012 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 313598003013 Response regulator receiver domain; Region: Response_reg; pfam00072 313598003014 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 313598003015 active site 313598003016 phosphorylation site [posttranslational modification] 313598003017 intermolecular recognition site; other site 313598003018 dimerization interface [polypeptide binding]; other site 313598003019 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 313598003020 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313598003021 Walker A motif; other site 313598003022 ATP binding site [chemical binding]; other site 313598003023 Walker B motif; other site 313598003024 arginine finger; other site 313598003025 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598003026 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 313598003027 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 313598003028 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 313598003029 Walker A/P-loop; other site 313598003030 ATP binding site [chemical binding]; other site 313598003031 Q-loop/lid; other site 313598003032 ABC transporter signature motif; other site 313598003033 Walker B; other site 313598003034 D-loop; other site 313598003035 H-loop/switch region; other site 313598003036 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 313598003037 Transcriptional regulators [Transcription]; Region: MarR; COG1846 313598003038 MarR family; Region: MarR; pfam01047 313598003039 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 313598003040 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313598003041 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313598003042 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313598003043 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 313598003044 substrate binding site [chemical binding]; other site 313598003045 oxyanion hole (OAH) forming residues; other site 313598003046 trimer interface [polypeptide binding]; other site 313598003047 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 313598003048 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 313598003049 dimer interface [polypeptide binding]; other site 313598003050 active site 313598003051 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313598003052 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598003053 active site 313598003054 M28 Zn-Peptidases; Region: M28_like_2; cd05662 313598003055 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598003056 metal binding site [ion binding]; metal-binding site 313598003057 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 313598003058 HSP70 interaction site [polypeptide binding]; other site 313598003059 KTSC domain; Region: KTSC; pfam13619 313598003060 Protein of unknown function (DUF790); Region: DUF790; pfam05626 313598003061 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 313598003062 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598003063 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598003064 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313598003065 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 313598003066 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 313598003067 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 313598003068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598003069 NAD(P) binding site [chemical binding]; other site 313598003070 active site 313598003071 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 313598003072 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 313598003073 DNA photolyase; Region: DNA_photolyase; pfam00875 313598003074 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 313598003075 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 313598003076 DNA photolyase; Region: DNA_photolyase; pfam00875 313598003077 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 313598003078 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 313598003079 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313598003080 active site 313598003081 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 313598003082 classical (c) SDRs; Region: SDR_c; cd05233 313598003083 NAD(P) binding site [chemical binding]; other site 313598003084 active site 313598003085 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 313598003086 catalytic residues [active] 313598003087 dimer interface [polypeptide binding]; other site 313598003088 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 313598003089 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 313598003090 putative hydrophobic ligand binding site [chemical binding]; other site 313598003091 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 313598003092 DNA photolyase; Region: DNA_photolyase; pfam00875 313598003093 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 313598003094 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 313598003095 SCP-2 sterol transfer family; Region: SCP2; pfam02036 313598003096 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 313598003097 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313598003098 PGAP1-like protein; Region: PGAP1; pfam07819 313598003099 PGAP1-like protein; Region: PGAP1; pfam07819 313598003100 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598003101 glycerol-3-phosphate acyltransferase; Validated; Region: PRK03355 313598003102 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 313598003103 putative acyl-acceptor binding pocket; other site 313598003104 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 313598003105 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313598003106 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313598003107 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598003108 putative acyl-acceptor binding pocket; other site 313598003109 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 313598003110 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313598003111 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 313598003112 Bacterial transcriptional activator domain; Region: BTAD; smart01043 313598003113 Uncharacterized conserved protein [Function unknown]; Region: COG3743 313598003114 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 313598003115 ABC1 family; Region: ABC1; cl17513 313598003116 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 313598003117 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 313598003118 ATP-binding site [chemical binding]; other site 313598003119 Sugar specificity; other site 313598003120 Pyrimidine base specificity; other site 313598003121 Septum formation initiator; Region: DivIC; cl17659 313598003122 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 313598003123 heterodimer interface [polypeptide binding]; other site 313598003124 substrate interaction site [chemical binding]; other site 313598003125 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 313598003126 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 313598003127 active site 313598003128 substrate binding site [chemical binding]; other site 313598003129 coenzyme B12 binding site [chemical binding]; other site 313598003130 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 313598003131 B12 binding site [chemical binding]; other site 313598003132 cobalt ligand [ion binding]; other site 313598003133 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313598003134 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 313598003135 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 313598003136 FeS/SAM binding site; other site 313598003137 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 313598003138 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 313598003139 acetolactate synthase; Reviewed; Region: PRK08322 313598003140 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 313598003141 PYR/PP interface [polypeptide binding]; other site 313598003142 dimer interface [polypeptide binding]; other site 313598003143 TPP binding site [chemical binding]; other site 313598003144 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 313598003145 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 313598003146 TPP-binding site [chemical binding]; other site 313598003147 dimer interface [polypeptide binding]; other site 313598003148 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313598003149 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 313598003150 NAD(P) binding site [chemical binding]; other site 313598003151 catalytic residues [active] 313598003152 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 313598003153 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 313598003154 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313598003155 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313598003156 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 313598003157 GMP synthase; Reviewed; Region: guaA; PRK00074 313598003158 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 313598003159 AMP/PPi binding site [chemical binding]; other site 313598003160 candidate oxyanion hole; other site 313598003161 catalytic triad [active] 313598003162 potential glutamine specificity residues [chemical binding]; other site 313598003163 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 313598003164 ATP Binding subdomain [chemical binding]; other site 313598003165 Ligand Binding sites [chemical binding]; other site 313598003166 Dimerization subdomain; other site 313598003167 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 313598003168 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 313598003169 dimer interface [polypeptide binding]; other site 313598003170 active site 313598003171 CoA binding pocket [chemical binding]; other site 313598003172 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 313598003173 heme-binding site [chemical binding]; other site 313598003174 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 313598003175 active site 313598003176 catalytic motif [active] 313598003177 Zn binding site [ion binding]; other site 313598003178 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 313598003179 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 313598003180 active site 313598003181 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 313598003182 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313598003183 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313598003184 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 313598003185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598003186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313598003187 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 313598003188 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 313598003189 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 313598003190 putative active site [active] 313598003191 GIY-YIG motif/motif A; other site 313598003192 putative metal binding site [ion binding]; other site 313598003193 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 313598003194 Chain length determinant protein; Region: Wzz; cl15801 313598003195 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 313598003196 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 313598003197 SLBB domain; Region: SLBB; pfam10531 313598003198 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 313598003199 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 313598003200 NAD(P) binding site [chemical binding]; other site 313598003201 homodimer interface [polypeptide binding]; other site 313598003202 substrate binding site [chemical binding]; other site 313598003203 active site 313598003204 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 313598003205 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 313598003206 Mg++ binding site [ion binding]; other site 313598003207 putative catalytic motif [active] 313598003208 putative substrate binding site [chemical binding]; other site 313598003209 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313598003210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598003211 NAD(P) binding site [chemical binding]; other site 313598003212 active site 313598003213 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313598003214 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 313598003215 metal-binding site 313598003216 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 313598003217 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 313598003218 motif II; other site 313598003219 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 313598003220 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 313598003221 Ligand binding site; other site 313598003222 oligomer interface; other site 313598003223 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 313598003224 active site 313598003225 catalytic residues [active] 313598003226 metal binding site [ion binding]; metal-binding site 313598003227 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313598003228 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 313598003229 flagellin modification protein A; Provisional; Region: PRK09186 313598003230 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598003231 NAD(P) binding site [chemical binding]; other site 313598003232 active site 313598003233 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313598003234 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313598003235 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313598003236 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 313598003237 ligand binding site; other site 313598003238 tetramer interface; other site 313598003239 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 313598003240 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 313598003241 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 313598003242 Substrate binding site; other site 313598003243 metal-binding site 313598003244 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 313598003245 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 313598003246 active site 313598003247 homodimer interface [polypeptide binding]; other site 313598003248 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 313598003249 NeuB family; Region: NeuB; pfam03102 313598003250 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 313598003251 NeuB binding interface [polypeptide binding]; other site 313598003252 putative substrate binding site [chemical binding]; other site 313598003253 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 313598003254 active site 313598003255 substrate binding site [chemical binding]; other site 313598003256 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 313598003257 cosubstrate binding site; other site 313598003258 catalytic site [active] 313598003259 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 313598003260 active site 313598003261 hexamer interface [polypeptide binding]; other site 313598003262 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 313598003263 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 313598003264 inhibitor-cofactor binding pocket; inhibition site 313598003265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003266 catalytic residue [active] 313598003267 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 313598003268 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 313598003269 NAD(P) binding site [chemical binding]; other site 313598003270 homodimer interface [polypeptide binding]; other site 313598003271 substrate binding site [chemical binding]; other site 313598003272 active site 313598003273 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 313598003274 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 313598003275 NADP-binding site; other site 313598003276 homotetramer interface [polypeptide binding]; other site 313598003277 substrate binding site [chemical binding]; other site 313598003278 homodimer interface [polypeptide binding]; other site 313598003279 active site 313598003280 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 313598003281 four helix bundle protein; Region: TIGR02436 313598003282 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 313598003283 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 313598003284 NADP binding site [chemical binding]; other site 313598003285 active site 313598003286 putative substrate binding site [chemical binding]; other site 313598003287 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 313598003288 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313598003289 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313598003290 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 313598003291 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313598003292 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313598003293 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313598003294 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 313598003295 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313598003296 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313598003297 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313598003298 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 313598003299 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 313598003300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598003301 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003302 active site 313598003303 HIGH motif; other site 313598003304 nucleotide binding site [chemical binding]; other site 313598003305 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003306 active site 313598003307 nucleotide binding site [chemical binding]; other site 313598003308 HIGH motif; other site 313598003309 KMSKS motif; other site 313598003310 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 313598003311 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 313598003312 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313598003313 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 313598003314 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 313598003315 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 313598003316 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313598003317 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 313598003318 NAD(P) binding pocket [chemical binding]; other site 313598003319 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 313598003320 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598003321 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 313598003322 FAD binding site [chemical binding]; other site 313598003323 homotetramer interface [polypeptide binding]; other site 313598003324 substrate binding pocket [chemical binding]; other site 313598003325 catalytic base [active] 313598003326 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 313598003327 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313598003328 active site 313598003329 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 313598003330 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 313598003331 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 313598003332 Nitrogen regulatory protein P-II; Region: P-II; smart00938 313598003333 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 313598003334 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 313598003335 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 313598003336 active site 313598003337 dimer interface [polypeptide binding]; other site 313598003338 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 313598003339 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 313598003340 active site 313598003341 FMN binding site [chemical binding]; other site 313598003342 substrate binding site [chemical binding]; other site 313598003343 3Fe-4S cluster binding site [ion binding]; other site 313598003344 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 313598003345 domain interface; other site 313598003346 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 313598003347 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598003348 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 313598003349 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 313598003350 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313598003351 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 313598003352 active site 313598003353 dimer interface [polypeptide binding]; other site 313598003354 motif 1; other site 313598003355 motif 2; other site 313598003356 motif 3; other site 313598003357 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 313598003358 anticodon binding site; other site 313598003359 translation initiation factor IF-3; Region: infC; TIGR00168 313598003360 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 313598003361 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 313598003362 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 313598003363 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 313598003364 23S rRNA binding site [nucleotide binding]; other site 313598003365 L21 binding site [polypeptide binding]; other site 313598003366 L13 binding site [polypeptide binding]; other site 313598003367 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 313598003368 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 313598003369 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 313598003370 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 313598003371 ligand binding site; other site 313598003372 oligomer interface; other site 313598003373 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 313598003374 dimer interface [polypeptide binding]; other site 313598003375 N-terminal domain interface [polypeptide binding]; other site 313598003376 sulfate 1 binding site; other site 313598003377 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 313598003378 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 313598003379 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313598003380 active site 313598003381 homodimer interface [polypeptide binding]; other site 313598003382 catalytic site [active] 313598003383 acceptor binding site [chemical binding]; other site 313598003384 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 313598003385 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 313598003386 glycogen branching enzyme; Provisional; Region: PRK12313 313598003387 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 313598003388 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 313598003389 active site 313598003390 catalytic site [active] 313598003391 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 313598003392 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 313598003393 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 313598003394 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 313598003395 trimer interface [polypeptide binding]; other site 313598003396 active site 313598003397 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 313598003398 catalytic site [active] 313598003399 peptide chain release factor 1; Validated; Region: prfA; PRK00591 313598003400 PCRF domain; Region: PCRF; pfam03462 313598003401 RF-1 domain; Region: RF-1; pfam00472 313598003402 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313598003403 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 313598003404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598003405 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 313598003406 dimer interface [polypeptide binding]; other site 313598003407 phosphorylation site [posttranslational modification] 313598003408 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 313598003409 ATP binding site [chemical binding]; other site 313598003410 Mg2+ binding site [ion binding]; other site 313598003411 G-X-G motif; other site 313598003412 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 313598003413 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 313598003414 dimerization interface [polypeptide binding]; other site 313598003415 ATP binding site [chemical binding]; other site 313598003416 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 313598003417 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 313598003418 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 313598003419 glutamine synthetase; Region: PLN02284 313598003420 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 313598003421 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 313598003422 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313598003423 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 313598003424 B12 binding site [chemical binding]; other site 313598003425 cobalt ligand [ion binding]; other site 313598003426 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 313598003427 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 313598003428 Walker A; other site 313598003429 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 313598003430 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313598003431 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 313598003432 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 313598003433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598003434 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 313598003435 DNA binding residues [nucleotide binding] 313598003436 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313598003437 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313598003438 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313598003439 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 313598003440 S-adenosylmethionine binding site [chemical binding]; other site 313598003441 NRDE protein; Region: NRDE; cl01315 313598003442 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 313598003443 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 313598003444 Glutamate binding site [chemical binding]; other site 313598003445 NAD binding site [chemical binding]; other site 313598003446 catalytic residues [active] 313598003447 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 313598003448 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 313598003449 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313598003450 Interdomain contacts; other site 313598003451 Cytokine receptor motif; other site 313598003452 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313598003453 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 313598003454 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 313598003455 RNA/DNA hybrid binding site [nucleotide binding]; other site 313598003456 active site 313598003457 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 313598003458 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 313598003459 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313598003460 active site 313598003461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598003462 Coenzyme A binding pocket [chemical binding]; other site 313598003463 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 313598003464 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 313598003465 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 313598003466 methionine gamma-lyase; Region: PLN02242 313598003467 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 313598003468 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598003469 catalytic residue [active] 313598003470 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 313598003471 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 313598003472 putative DNA binding site [nucleotide binding]; other site 313598003473 putative Zn2+ binding site [ion binding]; other site 313598003474 AsnC family; Region: AsnC_trans_reg; pfam01037 313598003475 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313598003476 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 313598003477 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313598003478 YceI-like domain; Region: YceI; pfam04264 313598003479 D-tyrosyl-tRNA(Tyr) deacylase; Provisional; Region: PRK05273 313598003480 dimerization interface [polypeptide binding]; other site 313598003481 putative tRNAtyr binding site [nucleotide binding]; other site 313598003482 putative active site [active] 313598003483 GTPase RsgA; Reviewed; Region: PRK00098 313598003484 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 313598003485 RNA binding site [nucleotide binding]; other site 313598003486 homodimer interface [polypeptide binding]; other site 313598003487 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 313598003488 GTPase/Zn-binding domain interface [polypeptide binding]; other site 313598003489 GTP/Mg2+ binding site [chemical binding]; other site 313598003490 G4 box; other site 313598003491 G5 box; other site 313598003492 G1 box; other site 313598003493 Switch I region; other site 313598003494 G2 box; other site 313598003495 G3 box; other site 313598003496 Switch II region; other site 313598003497 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 313598003498 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 313598003499 Chorismate mutase type II; Region: CM_2; smart00830 313598003500 prephenate dehydrogenase; Validated; Region: PRK08507 313598003501 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 313598003502 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 313598003503 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 313598003504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003505 homodimer interface [polypeptide binding]; other site 313598003506 catalytic residue [active] 313598003507 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 313598003508 Prephenate dehydratase; Region: PDT; pfam00800 313598003509 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 313598003510 putative L-Phe binding site [chemical binding]; other site 313598003511 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 313598003512 Protein of unknown function DUF58; Region: DUF58; pfam01882 313598003513 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 313598003514 Zn binding site [ion binding]; other site 313598003515 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 313598003516 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598003517 catalytic residues [active] 313598003518 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 313598003519 FAD binding site [chemical binding]; other site 313598003520 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 313598003521 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 313598003522 substrate binding pocket [chemical binding]; other site 313598003523 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 313598003524 B12 binding site [chemical binding]; other site 313598003525 cobalt ligand [ion binding]; other site 313598003526 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 313598003527 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 313598003528 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 313598003529 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313598003530 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 313598003531 dimer interface [polypeptide binding]; other site 313598003532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003533 catalytic residue [active] 313598003534 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 313598003535 serine O-acetyltransferase; Region: cysE; TIGR01172 313598003536 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 313598003537 trimer interface [polypeptide binding]; other site 313598003538 active site 313598003539 substrate binding site [chemical binding]; other site 313598003540 CoA binding site [chemical binding]; other site 313598003541 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 313598003542 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 313598003543 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313598003544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598003545 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598003546 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 313598003547 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 313598003548 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 313598003549 active site 313598003550 SAM binding site [chemical binding]; other site 313598003551 homodimer interface [polypeptide binding]; other site 313598003552 precorrin-3B synthase; Region: CobG; TIGR02435 313598003553 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 313598003554 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 313598003555 HEPN domain; Region: HEPN; pfam05168 313598003556 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 313598003557 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 313598003558 CysD dimerization site [polypeptide binding]; other site 313598003559 G1 box; other site 313598003560 putative GEF interaction site [polypeptide binding]; other site 313598003561 GTP/Mg2+ binding site [chemical binding]; other site 313598003562 Switch I region; other site 313598003563 G2 box; other site 313598003564 G3 box; other site 313598003565 Switch II region; other site 313598003566 G4 box; other site 313598003567 G5 box; other site 313598003568 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 313598003569 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 313598003570 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 313598003571 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 313598003572 Active Sites [active] 313598003573 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 313598003574 Active Sites [active] 313598003575 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 313598003576 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 313598003577 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 313598003578 Predicted transcriptional regulator [Transcription]; Region: COG1959 313598003579 Transcriptional regulator; Region: Rrf2; pfam02082 313598003580 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 313598003581 Alginate lyase; Region: Alginate_lyase2; pfam08787 313598003582 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 313598003583 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 313598003584 homodimer interface [polypeptide binding]; other site 313598003585 substrate-cofactor binding pocket; other site 313598003586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003587 catalytic residue [active] 313598003588 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 313598003589 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 313598003590 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 313598003591 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 313598003592 nucleotide binding site [chemical binding]; other site 313598003593 substrate binding site [chemical binding]; other site 313598003594 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 313598003595 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313598003596 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313598003597 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 313598003598 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 313598003599 homodimer interface [polypeptide binding]; other site 313598003600 substrate-cofactor binding pocket; other site 313598003601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003602 catalytic residue [active] 313598003603 S-adenosylmethionine synthetase; Validated; Region: PRK05250 313598003604 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 313598003605 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 313598003606 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 313598003607 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313598003608 active site 313598003609 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598003610 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 313598003611 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598003612 putative catalytic residue [active] 313598003613 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 313598003614 flavoprotein, HI0933 family; Region: TIGR00275 313598003615 mevalonate kinase; Region: mevalon_kin; TIGR00549 313598003616 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 313598003617 homodimer interface [polypeptide binding]; other site 313598003618 catalytic residues [active] 313598003619 NAD binding site [chemical binding]; other site 313598003620 substrate binding pocket [chemical binding]; other site 313598003621 flexible flap; other site 313598003622 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 313598003623 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313598003624 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598003625 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313598003626 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 313598003627 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 313598003628 putative substrate translocation pore; other site 313598003629 POT family; Region: PTR2; cl17359 313598003630 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 313598003631 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 313598003632 putative substrate translocation pore; other site 313598003633 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 313598003634 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313598003635 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 313598003636 Competence protein; Region: Competence; pfam03772 313598003637 NlpC/P60 family; Region: NLPC_P60; pfam00877 313598003638 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 313598003639 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 313598003640 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 313598003641 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598003642 C-terminal peptidase (prc); Region: prc; TIGR00225 313598003643 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 313598003644 protein binding site [polypeptide binding]; other site 313598003645 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313598003646 Catalytic dyad [active] 313598003647 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 313598003648 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 313598003649 active site 313598003650 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598003651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598003652 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 313598003653 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598003654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598003655 Response regulator receiver domain; Region: Response_reg; pfam00072 313598003656 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 313598003657 active site 313598003658 phosphorylation site [posttranslational modification] 313598003659 intermolecular recognition site; other site 313598003660 dimerization interface [polypeptide binding]; other site 313598003661 CHASE3 domain; Region: CHASE3; pfam05227 313598003662 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 313598003663 putative active site [active] 313598003664 PAS fold; Region: PAS_3; pfam08447 313598003665 heme pocket [chemical binding]; other site 313598003666 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 313598003667 dimer interface [polypeptide binding]; other site 313598003668 phosphorylation site [posttranslational modification] 313598003669 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 313598003670 ATP binding site [chemical binding]; other site 313598003671 Mg2+ binding site [ion binding]; other site 313598003672 G-X-G motif; other site 313598003673 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 313598003674 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 313598003675 NAD(P) binding site [chemical binding]; other site 313598003676 hypothetical protein; Provisional; Region: PRK08201 313598003677 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 313598003678 metal binding site [ion binding]; metal-binding site 313598003679 putative dimer interface [polypeptide binding]; other site 313598003680 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598003681 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313598003682 ligand binding site [chemical binding]; other site 313598003683 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313598003684 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 313598003685 active site 313598003686 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313598003687 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313598003688 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 313598003689 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 313598003690 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 313598003691 dimer interface [polypeptide binding]; other site 313598003692 putative anticodon binding site; other site 313598003693 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 313598003694 motif 1; other site 313598003695 active site 313598003696 motif 2; other site 313598003697 motif 3; other site 313598003698 glutaminase; Provisional; Region: PRK00971 313598003699 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 313598003700 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 313598003701 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 313598003702 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 313598003703 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 313598003704 S-adenosylmethionine binding site [chemical binding]; other site 313598003705 Fatty acid desaturase; Region: FA_desaturase; pfam00487 313598003706 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 313598003707 putative di-iron ligands [ion binding]; other site 313598003708 aspartate aminotransferase; Provisional; Region: PRK05764 313598003709 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 313598003710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003711 homodimer interface [polypeptide binding]; other site 313598003712 catalytic residue [active] 313598003713 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598003714 cell division protein FtsZ; Validated; Region: PRK09330 313598003715 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 313598003716 nucleotide binding site [chemical binding]; other site 313598003717 SulA interaction site; other site 313598003718 cell division protein FtsA; Region: ftsA; TIGR01174 313598003719 Cell division protein FtsA; Region: FtsA; smart00842 313598003720 Cell division protein FtsA; Region: FtsA; pfam14450 313598003721 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 313598003722 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 313598003723 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313598003724 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598003725 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313598003726 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 313598003727 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 313598003728 active site 313598003729 homodimer interface [polypeptide binding]; other site 313598003730 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 313598003731 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 313598003732 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598003733 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313598003734 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 313598003735 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 313598003736 Mg++ binding site [ion binding]; other site 313598003737 putative catalytic motif [active] 313598003738 putative substrate binding site [chemical binding]; other site 313598003739 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 313598003740 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313598003741 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598003742 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313598003743 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 313598003744 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313598003745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313598003746 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 313598003747 MraW methylase family; Region: Methyltransf_5; cl17771 313598003748 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 313598003749 cell division protein MraZ; Reviewed; Region: PRK00326 313598003750 MraZ protein; Region: MraZ; pfam02381 313598003751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598003752 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 313598003753 G1 box; other site 313598003754 GTP/Mg2+ binding site [chemical binding]; other site 313598003755 Switch I region; other site 313598003756 G2 box; other site 313598003757 G3 box; other site 313598003758 Switch II region; other site 313598003759 G4 box; other site 313598003760 G5 box; other site 313598003761 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313598003762 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313598003763 active site 313598003764 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 313598003765 Fatty acid desaturase; Region: FA_desaturase; pfam00487 313598003766 Di-iron ligands [ion binding]; other site 313598003767 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 313598003768 dimer interface [polypeptide binding]; other site 313598003769 FMN binding site [chemical binding]; other site 313598003770 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 313598003771 dimer interface [polypeptide binding]; other site 313598003772 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 313598003773 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 313598003774 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 313598003775 active site 313598003776 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 313598003777 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 313598003778 inhibitor-cofactor binding pocket; inhibition site 313598003779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003780 catalytic residue [active] 313598003781 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 313598003782 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 313598003783 NAD binding site [chemical binding]; other site 313598003784 homodimer interface [polypeptide binding]; other site 313598003785 active site 313598003786 substrate binding site [chemical binding]; other site 313598003787 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313598003788 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 313598003789 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 313598003790 G1 box; other site 313598003791 GTP/Mg2+ binding site [chemical binding]; other site 313598003792 Switch I region; other site 313598003793 G2 box; other site 313598003794 G3 box; other site 313598003795 Switch II region; other site 313598003796 G4 box; other site 313598003797 G5 box; other site 313598003798 Nucleoside recognition; Region: Gate; pfam07670 313598003799 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 313598003800 Nucleoside recognition; Region: Gate; pfam07670 313598003801 FeoA domain; Region: FeoA; pfam04023 313598003802 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 313598003803 Cu(I) binding site [ion binding]; other site 313598003804 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 313598003805 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 313598003806 active site 313598003807 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 313598003808 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 313598003809 protein binding site [polypeptide binding]; other site 313598003810 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 313598003811 putative substrate binding region [chemical binding]; other site 313598003812 Cupin-like domain; Region: Cupin_8; pfam13621 313598003813 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313598003814 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 313598003815 N-terminal plug; other site 313598003816 ligand-binding site [chemical binding]; other site 313598003817 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 313598003818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313598003819 DNA-binding site [nucleotide binding]; DNA binding site 313598003820 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 313598003821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598003822 homodimer interface [polypeptide binding]; other site 313598003823 catalytic residue [active] 313598003824 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 313598003825 Catalytic site [active] 313598003826 Aspartyl protease; Region: Asp_protease_2; pfam13650 313598003827 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313598003828 protein binding site [polypeptide binding]; other site 313598003829 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 313598003830 salt bridge; other site 313598003831 non-specific DNA binding site [nucleotide binding]; other site 313598003832 sequence-specific DNA binding site [nucleotide binding]; other site 313598003833 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313598003834 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313598003835 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313598003836 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 313598003837 nucleoside/Zn binding site; other site 313598003838 dimer interface [polypeptide binding]; other site 313598003839 catalytic motif [active] 313598003840 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 313598003841 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 313598003842 TPP-binding site; other site 313598003843 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 313598003844 PYR/PP interface [polypeptide binding]; other site 313598003845 dimer interface [polypeptide binding]; other site 313598003846 TPP binding site [chemical binding]; other site 313598003847 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313598003848 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598003849 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598003850 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 313598003851 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 313598003852 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 313598003853 ATP cone domain; Region: ATP-cone; pfam03477 313598003854 Class I ribonucleotide reductase; Region: RNR_I; cd01679 313598003855 active site 313598003856 dimer interface [polypeptide binding]; other site 313598003857 catalytic residues [active] 313598003858 effector binding site; other site 313598003859 R2 peptide binding site; other site 313598003860 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 313598003861 dimer interface [polypeptide binding]; other site 313598003862 putative radical transfer pathway; other site 313598003863 diiron center [ion binding]; other site 313598003864 tyrosyl radical; other site 313598003865 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 313598003866 DNA-binding site [nucleotide binding]; DNA binding site 313598003867 RNA-binding motif; other site 313598003868 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 313598003869 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 313598003870 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 313598003871 MoaE homodimer interface [polypeptide binding]; other site 313598003872 MoaD interaction [polypeptide binding]; other site 313598003873 active site residues [active] 313598003874 integral membrane protein; Region: integ_memb_HG; TIGR03954 313598003875 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 313598003876 MoaE interaction surface [polypeptide binding]; other site 313598003877 MoeB interaction surface [polypeptide binding]; other site 313598003878 thiocarboxylated glycine; other site 313598003879 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598003880 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 313598003881 Malic enzyme, N-terminal domain; Region: malic; pfam00390 313598003882 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 313598003883 putative NAD(P) binding site [chemical binding]; other site 313598003884 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 313598003885 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 313598003886 RuvA N terminal domain; Region: RuvA_N; pfam01330 313598003887 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 313598003888 cell surface protein SprA; Region: surface_SprA; TIGR04189 313598003889 Motility related/secretion protein; Region: SprA_N; pfam14349 313598003890 Motility related/secretion protein; Region: SprA_N; pfam14349 313598003891 Motility related/secretion protein; Region: SprA_N; pfam14349 313598003892 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 313598003893 lipoyl attachment site [posttranslational modification]; other site 313598003894 VanZ like family; Region: VanZ; pfam04892 313598003895 Gram-negative bacterial tonB protein; Region: TonB; cl10048 313598003896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 313598003897 MOSC domain; Region: MOSC; pfam03473 313598003898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598003899 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 313598003900 Conserved TM helix; Region: TM_helix; pfam05552 313598003901 mechanosensitive channel MscS; Provisional; Region: PRK10334 313598003902 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598003903 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313598003904 Glycoprotease family; Region: Peptidase_M22; pfam00814 313598003905 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313598003906 Protein of unknown function (DUF420); Region: DUF420; pfam04238 313598003907 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 313598003908 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 313598003909 Cu(I) binding site [ion binding]; other site 313598003910 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 313598003911 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 313598003912 Subunit I/III interface [polypeptide binding]; other site 313598003913 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 313598003914 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 313598003915 Subunit I/III interface [polypeptide binding]; other site 313598003916 Polyprenyltransferase (cytochrome oxidase assembly factor) [Posttranslational modification, protein turnover, chaperones]; Region: CyoE; COG0109 313598003917 UbiA prenyltransferase family; Region: UbiA; pfam01040 313598003918 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313598003919 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 313598003920 substrate binding site [chemical binding]; other site 313598003921 oxyanion hole (OAH) forming residues; other site 313598003922 trimer interface [polypeptide binding]; other site 313598003923 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 313598003924 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003925 active site 313598003926 HIGH motif; other site 313598003927 nucleotide binding site [chemical binding]; other site 313598003928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003929 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313598003930 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003931 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003932 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598003933 active site 313598003934 KMSKS motif; other site 313598003935 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 313598003936 tRNA binding surface [nucleotide binding]; other site 313598003937 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 313598003938 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313598003939 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313598003940 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313598003941 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313598003942 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313598003943 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313598003944 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 313598003945 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 313598003946 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 313598003947 Protein of unknown function, DUF547; Region: DUF547; pfam04784 313598003948 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 313598003949 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 313598003950 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 313598003951 FeS/SAM binding site; other site 313598003952 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 313598003953 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 313598003954 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598003955 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598003956 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598003957 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 313598003958 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 313598003959 starch binding outer membrane protein SusD; Region: SusD; cd08977 313598003960 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313598003961 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 313598003962 active site 313598003963 metal binding site [ion binding]; metal-binding site 313598003964 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 313598003965 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 313598003966 active site residue [active] 313598003967 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 313598003968 purine nucleoside phosphorylase; Provisional; Region: PRK08202 313598003969 Ecdysteroid kinase; Region: EcKinase; cl17738 313598003970 Phosphotransferase enzyme family; Region: APH; pfam01636 313598003971 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 313598003972 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 313598003973 active site 313598003974 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313598003975 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 313598003976 ligand binding site [chemical binding]; other site 313598003977 flexible hinge region; other site 313598003978 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 313598003979 putative catalytic residues [active] 313598003980 short chain dehydrogenase; Provisional; Region: PRK06180 313598003981 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 313598003982 NADP binding site [chemical binding]; other site 313598003983 active site 313598003984 steroid binding site; other site 313598003985 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313598003986 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598003987 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 313598003988 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 313598003989 hydrophobic ligand binding site; other site 313598003990 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 313598003991 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 313598003992 putative hydrophobic ligand binding site [chemical binding]; other site 313598003993 protein interface [polypeptide binding]; other site 313598003994 gate; other site 313598003995 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 313598003996 non-specific DNA binding site [nucleotide binding]; other site 313598003997 salt bridge; other site 313598003998 sequence-specific DNA binding site [nucleotide binding]; other site 313598003999 Protein of unknown function, DUF481; Region: DUF481; cl01213 313598004000 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 313598004001 dimer interface [polypeptide binding]; other site 313598004002 putative inhibitory loop; other site 313598004003 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 313598004004 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 313598004005 putative active site [active] 313598004006 putative metal binding site [ion binding]; other site 313598004007 LytTr DNA-binding domain; Region: LytTR; smart00850 313598004008 DinB superfamily; Region: DinB_2; pfam12867 313598004009 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 313598004010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598004011 Coenzyme A binding pocket [chemical binding]; other site 313598004012 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 313598004013 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 313598004014 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 313598004015 active site 313598004016 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 313598004017 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cd00042 313598004018 putative proteinase inhibition site; other site 313598004019 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cd00042 313598004020 putative proteinase inhibition site; other site 313598004021 Cystatin-like domain; Cystatins are a family of cysteine protease inhibitors that occur mainly as single domain proteins. However some extracellular proteins such as kininogen, His-rich glycoprotein and fetuin also contain these domains; Region: CY; cd00042 313598004022 putative proteinase inhibition site; other site 313598004023 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 313598004024 META domain; Region: META; pfam03724 313598004025 META domain; Region: META; pfam03724 313598004026 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313598004027 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598004028 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 313598004029 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 313598004030 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 313598004031 active site 313598004032 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 313598004033 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 313598004034 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313598004035 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313598004036 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 313598004037 active site 313598004038 metal binding site [ion binding]; metal-binding site 313598004039 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598004040 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598004041 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 313598004042 YceI-like domain; Region: YceI; pfam04264 313598004043 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313598004044 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598004045 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 313598004046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 313598004047 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313598004048 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313598004049 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313598004050 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 313598004051 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313598004052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598004053 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 313598004054 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 313598004055 Ligand binding site; other site 313598004056 Putative Catalytic site; other site 313598004057 DXD motif; other site 313598004058 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313598004059 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 313598004060 DXD motif; other site 313598004061 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313598004062 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313598004063 DNA binding site [nucleotide binding] 313598004064 domain linker motif; other site 313598004065 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 313598004066 dimerization interface [polypeptide binding]; other site 313598004067 ligand binding site [chemical binding]; other site 313598004068 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 313598004069 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 313598004070 active site 313598004071 motif I; other site 313598004072 motif II; other site 313598004073 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313598004074 Predicted amidohydrolase [General function prediction only]; Region: COG0388 313598004075 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 313598004076 putative active site [active] 313598004077 catalytic triad [active] 313598004078 putative dimer interface [polypeptide binding]; other site 313598004079 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 313598004080 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313598004081 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313598004082 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313598004083 substrate binding pocket [chemical binding]; other site 313598004084 chain length determination region; other site 313598004085 substrate-Mg2+ binding site; other site 313598004086 catalytic residues [active] 313598004087 aspartate-rich region 1; other site 313598004088 active site lid residues [active] 313598004089 aspartate-rich region 2; other site 313598004090 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 313598004091 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 313598004092 FeS/SAM binding site; other site 313598004093 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 313598004094 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 313598004095 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 313598004096 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 313598004097 hinge; other site 313598004098 active site 313598004099 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 313598004100 Asp-box motif; other site 313598004101 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 313598004102 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 313598004103 homodimer interface [polypeptide binding]; other site 313598004104 metal binding site [ion binding]; metal-binding site 313598004105 PGAP1-like protein; Region: PGAP1; pfam07819 313598004106 acyl-CoA esterase; Provisional; Region: PRK10673 313598004107 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 313598004108 active site 313598004109 hydrophilic channel; other site 313598004110 dimerization interface [polypeptide binding]; other site 313598004111 catalytic residues [active] 313598004112 active site lid [active] 313598004113 FOG: CBS domain [General function prediction only]; Region: COG0517 313598004114 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 313598004115 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 313598004116 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 313598004117 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 313598004118 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 313598004119 catalytic residue [active] 313598004120 putative FPP diphosphate binding site; other site 313598004121 putative FPP binding hydrophobic cleft; other site 313598004122 dimer interface [polypeptide binding]; other site 313598004123 putative IPP diphosphate binding site; other site 313598004124 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 313598004125 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313598004126 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313598004127 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313598004128 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598004129 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 313598004130 periplasmic chaperone; Provisional; Region: PRK10780 313598004131 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313598004132 glutamate racemase; Provisional; Region: PRK00865 313598004133 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313598004134 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313598004135 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 313598004136 non-specific DNA binding site [nucleotide binding]; other site 313598004137 salt bridge; other site 313598004138 sequence-specific DNA binding site [nucleotide binding]; other site 313598004139 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 313598004140 Catalytic site [active] 313598004141 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 313598004142 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 313598004143 active site 313598004144 DNA binding site [nucleotide binding] 313598004145 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 313598004146 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 313598004147 active site 313598004148 PHP Thumb interface [polypeptide binding]; other site 313598004149 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; pfam05708 313598004150 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313598004151 Beta-lactamase; Region: Beta-lactamase; pfam00144 313598004152 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 313598004153 HNH endonuclease; Region: HNH_4; pfam13395 313598004154 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 313598004155 nucleotide binding site/active site [active] 313598004156 HIT family signature motif; other site 313598004157 catalytic residue [active] 313598004158 Part of AAA domain; Region: AAA_19; pfam13245 313598004159 AAA domain; Region: AAA_22; pfam13401 313598004160 Family description; Region: UvrD_C_2; pfam13538 313598004161 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 313598004162 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 313598004163 nucleotide binding site [chemical binding]; other site 313598004164 putative NEF/HSP70 interaction site [polypeptide binding]; other site 313598004165 SBD interface [polypeptide binding]; other site 313598004166 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 313598004167 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 313598004168 WYL domain; Region: WYL; pfam13280 313598004169 BstXI restriction endonuclease; Region: RE_BstXI; pfam09552 313598004170 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 313598004171 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 313598004172 nucleotide binding region [chemical binding]; other site 313598004173 ATP-binding site [chemical binding]; other site 313598004174 Nuclease-related domain; Region: NERD; pfam08378 313598004175 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 313598004176 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313598004177 Walker A motif; other site 313598004178 ATP binding site [chemical binding]; other site 313598004179 Walker B motif; other site 313598004180 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 313598004181 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 313598004182 cofactor binding site; other site 313598004183 DNA binding site [nucleotide binding] 313598004184 substrate interaction site [chemical binding]; other site 313598004185 Protein of unknown function (DUF581); Region: DUF581; pfam04570 313598004186 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 313598004187 active site 313598004188 catalytic residues [active] 313598004189 DNA binding site [nucleotide binding] 313598004190 Int/Topo IB signature motif; other site 313598004191 GTPase Era; Reviewed; Region: era; PRK00089 313598004192 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 313598004193 G1 box; other site 313598004194 GTP/Mg2+ binding site [chemical binding]; other site 313598004195 Switch I region; other site 313598004196 G2 box; other site 313598004197 Switch II region; other site 313598004198 G3 box; other site 313598004199 G4 box; other site 313598004200 G5 box; other site 313598004201 KH domain; Region: KH_2; pfam07650 313598004202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 313598004203 GTP-binding protein Der; Reviewed; Region: PRK00093 313598004204 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 313598004205 G1 box; other site 313598004206 GTP/Mg2+ binding site [chemical binding]; other site 313598004207 Switch I region; other site 313598004208 G2 box; other site 313598004209 Switch II region; other site 313598004210 G3 box; other site 313598004211 G4 box; other site 313598004212 G5 box; other site 313598004213 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 313598004214 G1 box; other site 313598004215 GTP/Mg2+ binding site [chemical binding]; other site 313598004216 Switch I region; other site 313598004217 G2 box; other site 313598004218 G3 box; other site 313598004219 Switch II region; other site 313598004220 G4 box; other site 313598004221 G5 box; other site 313598004222 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313598004223 Zn2+ binding site [ion binding]; other site 313598004224 Mg2+ binding site [ion binding]; other site 313598004225 methionine sulfoxide reductase B; Provisional; Region: PRK00222 313598004226 SelR domain; Region: SelR; pfam01641 313598004227 methionine sulfoxide reductase A; Provisional; Region: PRK14054 313598004228 hypothetical protein; Validated; Region: PRK00029 313598004229 Uncharacterized conserved protein [Function unknown]; Region: COG0397 313598004230 Domain of unknown function (DUF427); Region: DUF427; pfam04248 313598004231 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 313598004232 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313598004233 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 313598004234 catalytic loop [active] 313598004235 iron binding site [ion binding]; other site 313598004236 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313598004237 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313598004238 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598004239 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313598004240 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598004241 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598004242 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 313598004243 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 313598004244 XdhC Rossmann domain; Region: XdhC_C; pfam13478 313598004245 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 313598004246 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 313598004247 Ligand binding site; other site 313598004248 metal-binding site 313598004249 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313598004250 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 313598004251 active site 313598004252 metal binding site [ion binding]; metal-binding site 313598004253 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598004254 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 313598004255 Repair protein; Region: Repair_PSII; pfam04536 313598004256 Repair protein; Region: Repair_PSII; pfam04536 313598004257 LemA family; Region: LemA; cl00742 313598004258 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 313598004259 classical (c) SDRs; Region: SDR_c; cd05233 313598004260 NAD(P) binding site [chemical binding]; other site 313598004261 active site 313598004262 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 313598004263 Phosphotransferase enzyme family; Region: APH; pfam01636 313598004264 putative active site [active] 313598004265 putative substrate binding site [chemical binding]; other site 313598004266 ATP binding site [chemical binding]; other site 313598004267 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598004268 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313598004269 active site 313598004270 short chain dehydrogenase; Provisional; Region: PRK07035 313598004271 classical (c) SDRs; Region: SDR_c; cd05233 313598004272 NAD(P) binding site [chemical binding]; other site 313598004273 active site 313598004274 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598004275 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313598004276 active site 313598004277 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 313598004278 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 313598004279 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313598004280 DNA binding residues [nucleotide binding] 313598004281 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313598004282 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598004283 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 313598004284 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 313598004285 motif 1; other site 313598004286 active site 313598004287 motif 2; other site 313598004288 motif 3; other site 313598004289 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313598004290 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 313598004291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 313598004292 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598004293 GSCFA family; Region: GSCFA; pfam08885 313598004294 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598004295 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 313598004296 TPR motif; other site 313598004297 binding surface 313598004298 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598004299 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598004300 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 313598004301 binding surface 313598004302 TPR motif; other site 313598004303 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598004304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313598004305 Histidine kinase; Region: HisKA_3; pfam07730 313598004306 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 313598004307 ATP binding site [chemical binding]; other site 313598004308 Mg2+ binding site [ion binding]; other site 313598004309 G-X-G motif; other site 313598004310 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598004311 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 313598004312 active site 313598004313 phosphorylation site [posttranslational modification] 313598004314 intermolecular recognition site; other site 313598004315 dimerization interface [polypeptide binding]; other site 313598004316 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 313598004317 DNA binding residues [nucleotide binding] 313598004318 dimerization interface [polypeptide binding]; other site 313598004319 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 313598004320 active site residue [active] 313598004321 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 313598004322 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 313598004323 cofactor binding site; other site 313598004324 metal binding site [ion binding]; metal-binding site 313598004325 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 313598004326 phosphoglyceromutase; Provisional; Region: PRK05434 313598004327 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 313598004328 catalytic residues [active] 313598004329 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 313598004330 active site 313598004331 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 313598004332 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 313598004333 ApbE family; Region: ApbE; pfam02424 313598004334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598004335 ligand binding site [chemical binding]; other site 313598004336 AAA domain; Region: AAA_33; pfam13671 313598004337 AAA domain; Region: AAA_17; pfam13207 313598004338 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 313598004339 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313598004340 ATP binding site [chemical binding]; other site 313598004341 Mg++ binding site [ion binding]; other site 313598004342 motif III; other site 313598004343 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 313598004344 nucleotide binding region [chemical binding]; other site 313598004345 ATP-binding site [chemical binding]; other site 313598004346 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 313598004347 active site 313598004348 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 313598004349 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 313598004350 DNA binding site [nucleotide binding] 313598004351 active site 313598004352 glycyl-tRNA synthetase; Provisional; Region: PRK04173 313598004353 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 313598004354 motif 1; other site 313598004355 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 313598004356 active site 313598004357 motif 2; other site 313598004358 motif 3; other site 313598004359 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 313598004360 anticodon binding site; other site 313598004361 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 313598004362 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598004363 active site 313598004364 Bacterial Ig-like domain; Region: Big_5; pfam13205 313598004365 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 313598004366 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 313598004367 homodimer interface [polypeptide binding]; other site 313598004368 substrate-cofactor binding pocket; other site 313598004369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598004370 catalytic residue [active] 313598004371 DinB superfamily; Region: DinB_2; pfam12867 313598004372 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313598004373 ArsC family; Region: ArsC; pfam03960 313598004374 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313598004375 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 313598004376 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 313598004377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598004378 thymidine kinase; Provisional; Region: PRK04296 313598004379 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 313598004380 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 313598004381 active site 313598004382 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313598004383 dimer interface [polypeptide binding]; other site 313598004384 substrate binding site [chemical binding]; other site 313598004385 catalytic residues [active] 313598004386 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 313598004387 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 313598004388 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 313598004389 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598004390 putative acyl-acceptor binding pocket; other site 313598004391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 313598004392 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 313598004393 nucleotide binding site [chemical binding]; other site 313598004394 substrate binding site [chemical binding]; other site 313598004395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313598004396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598004397 Coenzyme A binding pocket [chemical binding]; other site 313598004398 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 313598004399 AMP binding site [chemical binding]; other site 313598004400 metal binding site [ion binding]; metal-binding site 313598004401 active site 313598004402 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 313598004403 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 313598004404 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 313598004405 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 313598004406 active site 313598004407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598004408 active site 313598004409 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313598004410 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 313598004411 substrate binding site [chemical binding]; other site 313598004412 ATP binding site [chemical binding]; other site 313598004413 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 313598004414 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 313598004415 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 313598004416 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 313598004417 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 313598004418 Domain of unknown function DUF21; Region: DUF21; pfam01595 313598004419 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 313598004420 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 313598004421 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 313598004422 HflX GTPase family; Region: HflX; cd01878 313598004423 G1 box; other site 313598004424 GTP/Mg2+ binding site [chemical binding]; other site 313598004425 Switch I region; other site 313598004426 G2 box; other site 313598004427 G3 box; other site 313598004428 Switch II region; other site 313598004429 G4 box; other site 313598004430 G5 box; other site 313598004431 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313598004432 putative catalytic site [active] 313598004433 putative metal binding site [ion binding]; other site 313598004434 putative phosphate binding site [ion binding]; other site 313598004435 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 313598004436 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 313598004437 active site 313598004438 catalytic site [active] 313598004439 metal binding site [ion binding]; metal-binding site 313598004440 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 313598004441 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 313598004442 Cl- selectivity filter; other site 313598004443 Cl- binding residues [ion binding]; other site 313598004444 pore gating glutamate residue; other site 313598004445 dimer interface [polypeptide binding]; other site 313598004446 FOG: CBS domain [General function prediction only]; Region: COG0517 313598004447 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_assoc2; cd04613 313598004448 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 313598004449 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 313598004450 dimer interface [polypeptide binding]; other site 313598004451 anticodon binding site; other site 313598004452 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 313598004453 homodimer interface [polypeptide binding]; other site 313598004454 motif 1; other site 313598004455 active site 313598004456 motif 2; other site 313598004457 GAD domain; Region: GAD; pfam02938 313598004458 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 313598004459 active site 313598004460 motif 3; other site 313598004461 Cupin domain; Region: Cupin_2; cl17218 313598004462 Predicted methyltransferases [General function prediction only]; Region: COG0313 313598004463 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 313598004464 putative SAM binding site [chemical binding]; other site 313598004465 putative homodimer interface [polypeptide binding]; other site 313598004466 HopJ type III effector protein; Region: HopJ; pfam08888 313598004467 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 313598004468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598004469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598004470 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598004471 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313598004472 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 313598004473 putative uracil binding site [chemical binding]; other site 313598004474 putative active site [active] 313598004475 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 313598004476 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 313598004477 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 313598004478 ligand binding surface [chemical binding]; other site 313598004479 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313598004480 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 313598004481 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 313598004482 DHH family; Region: DHH; pfam01368 313598004483 DHHA1 domain; Region: DHHA1; pfam02272 313598004484 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 313598004485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598004486 active site 313598004487 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 313598004488 PIF1-like helicase; Region: PIF1; pfam05970 313598004489 Walker A motif; other site 313598004490 ATP binding site [chemical binding]; other site 313598004491 Walker B motif; other site 313598004492 Helicase; Region: Herpes_Helicase; pfam02689 313598004493 HRDC domain; Region: HRDC; pfam00570 313598004494 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; pfam09966 313598004495 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 313598004496 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 313598004497 E3 interaction surface; other site 313598004498 lipoyl attachment site [posttranslational modification]; other site 313598004499 e3 binding domain; Region: E3_binding; pfam02817 313598004500 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313598004501 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 313598004502 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 313598004503 TPP-binding site [chemical binding]; other site 313598004504 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 313598004505 PYR/PP interface [polypeptide binding]; other site 313598004506 dimer interface [polypeptide binding]; other site 313598004507 TPP binding site [chemical binding]; other site 313598004508 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 313598004509 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cd12213 313598004510 ligand binding site [chemical binding]; other site 313598004511 Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor; Region: ZnMc_pappalysin_like; cd04275 313598004512 active site 313598004513 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313598004514 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 313598004515 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598004516 catalytic residue [active] 313598004517 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313598004518 Beta-lactamase; Region: Beta-lactamase; pfam00144 313598004519 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004520 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004521 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004522 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004523 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004524 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004525 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004526 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004527 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004528 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004529 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004530 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004531 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004532 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004533 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004534 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004535 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004536 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004537 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004538 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004539 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004540 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004541 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004542 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004543 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004544 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004545 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004546 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004547 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004548 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004549 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004550 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004551 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004552 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004553 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004554 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313598004555 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004556 Domain of unknown function DUF11; Region: DUF11; pfam01345 313598004557 Domain of unknown function DUF11; Region: DUF11; cl17728 313598004558 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313598004559 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313598004560 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 313598004561 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598004562 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313598004563 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598004564 ligand binding site [chemical binding]; other site 313598004565 FeS assembly protein SufD; Region: sufD; TIGR01981 313598004566 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 313598004567 FeS assembly ATPase SufC; Region: sufC; TIGR01978 313598004568 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 313598004569 Walker A/P-loop; other site 313598004570 ATP binding site [chemical binding]; other site 313598004571 Q-loop/lid; other site 313598004572 ABC transporter signature motif; other site 313598004573 Walker B; other site 313598004574 D-loop; other site 313598004575 H-loop/switch region; other site 313598004576 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 313598004577 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 313598004578 putative ABC transporter; Region: ycf24; CHL00085 313598004579 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 313598004580 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 313598004581 PQQ-like domain; Region: PQQ_2; pfam13360 313598004582 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 313598004583 thiamine-monophosphate kinase; Region: thiL; TIGR01379 313598004584 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 313598004585 ATP binding site [chemical binding]; other site 313598004586 dimerization interface [polypeptide binding]; other site 313598004587 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598004588 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 313598004589 DNA binding residues [nucleotide binding] 313598004590 dimerization interface [polypeptide binding]; other site 313598004591 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313598004592 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598004593 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 313598004594 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313598004595 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 313598004596 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313598004597 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598004598 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 313598004599 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313598004600 substrate binding site [chemical binding]; other site 313598004601 ATP binding site [chemical binding]; other site 313598004602 proline aminopeptidase P II; Provisional; Region: PRK10879 313598004603 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 313598004604 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 313598004605 active site 313598004606 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 313598004607 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 313598004608 ATP binding site [chemical binding]; other site 313598004609 Mg++ binding site [ion binding]; other site 313598004610 motif III; other site 313598004611 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 313598004612 nucleotide binding region [chemical binding]; other site 313598004613 ATP-binding site [chemical binding]; other site 313598004614 Predicted membrane protein [Function unknown]; Region: COG2261 313598004615 VPS10 domain; Region: VPS10; smart00602 313598004616 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 313598004617 proximal heme binding site [chemical binding]; other site 313598004618 putative dimer interface [polypeptide binding]; other site 313598004619 putative Iron-sulfur protein interface [polypeptide binding]; other site 313598004620 distal heme binding site [chemical binding]; other site 313598004621 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 313598004622 L-aspartate oxidase; Provisional; Region: PRK06175 313598004623 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 313598004624 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 313598004625 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 313598004626 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 313598004627 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 313598004628 non-specific DNA binding site [nucleotide binding]; other site 313598004629 salt bridge; other site 313598004630 sequence-specific DNA binding site [nucleotide binding]; other site 313598004631 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 313598004632 GLPGLI family protein; Region: GLPGLI; TIGR01200 313598004633 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598004634 Family description; Region: VCBS; pfam13517 313598004635 Family description; Region: VCBS; pfam13517 313598004636 Family description; Region: VCBS; pfam13517 313598004637 Family description; Region: VCBS; pfam13517 313598004638 Family description; Region: VCBS; pfam13517 313598004639 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313598004640 Family description; Region: VCBS; pfam13517 313598004641 Family description; Region: VCBS; pfam13517 313598004642 Family description; Region: VCBS; pfam13517 313598004643 Family description; Region: VCBS; pfam13517 313598004644 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 313598004645 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 313598004646 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 313598004647 active site 313598004648 RNA/DNA hybrid binding site [nucleotide binding]; other site 313598004649 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 313598004650 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 313598004651 active site 313598004652 substrate binding site [chemical binding]; other site 313598004653 cosubstrate binding site; other site 313598004654 catalytic site [active] 313598004655 acyl carrier protein; Provisional; Region: acpP; PRK00982 313598004656 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 313598004657 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 313598004658 dimer interface [polypeptide binding]; other site 313598004659 active site 313598004660 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 313598004661 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 313598004662 dimerization interface [polypeptide binding]; other site 313598004663 active site 313598004664 metal binding site [ion binding]; metal-binding site 313598004665 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 313598004666 dsRNA binding site [nucleotide binding]; other site 313598004667 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 313598004668 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 313598004669 domain interfaces; other site 313598004670 active site 313598004671 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 313598004672 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313598004673 active site 313598004674 catalytic tetrad [active] 313598004675 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 313598004676 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 313598004677 putative trimer interface [polypeptide binding]; other site 313598004678 putative active site [active] 313598004679 putative substrate binding site [chemical binding]; other site 313598004680 putative CoA binding site [chemical binding]; other site 313598004681 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313598004682 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 313598004683 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 313598004684 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313598004685 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 313598004686 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 313598004687 glutaminase active site [active] 313598004688 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 313598004689 dimer interface [polypeptide binding]; other site 313598004690 active site 313598004691 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 313598004692 dimer interface [polypeptide binding]; other site 313598004693 active site 313598004694 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 313598004695 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 313598004696 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 313598004697 pantoate--beta-alanine ligase; Region: panC; TIGR00018 313598004698 active site 313598004699 nucleotide binding site [chemical binding]; other site 313598004700 HIGH motif; other site 313598004701 KMSKS motif; other site 313598004702 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 313598004703 tetramerization interface [polypeptide binding]; other site 313598004704 active site 313598004705 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 313598004706 DNA repair protein RadA; Provisional; Region: PRK11823 313598004707 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 313598004708 Walker A motif/ATP binding site; other site 313598004709 ATP binding site [chemical binding]; other site 313598004710 Walker B motif; other site 313598004711 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313598004712 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 313598004713 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 313598004714 active site 313598004715 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 313598004716 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 313598004717 Ligand binding site; other site 313598004718 Putative Catalytic site; other site 313598004719 DXD motif; other site 313598004720 dihydroorotase; Reviewed; Region: PRK09236 313598004721 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 313598004722 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 313598004723 active site 313598004724 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 313598004725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598004726 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 313598004727 NAD(P) binding site [chemical binding]; other site 313598004728 active site 313598004729 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 313598004730 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 313598004731 active site 313598004732 HIGH motif; other site 313598004733 dimer interface [polypeptide binding]; other site 313598004734 KMSKS motif; other site 313598004735 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 313598004736 RNA binding surface [nucleotide binding]; other site 313598004737 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 313598004738 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 313598004739 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 313598004740 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 313598004741 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 313598004742 catalytic nucleophile [active] 313598004743 aldehyde dehydrogenase family 7 member; Region: PLN02315 313598004744 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 313598004745 tetrameric interface [polypeptide binding]; other site 313598004746 NAD binding site [chemical binding]; other site 313598004747 catalytic residues [active] 313598004748 Divergent AAA domain; Region: AAA_4; pfam04326 313598004749 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313598004750 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 313598004751 active site 313598004752 catalytic tetrad [active] 313598004753 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 313598004754 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 313598004755 putative NAD(P) binding site [chemical binding]; other site 313598004756 homotetramer interface [polypeptide binding]; other site 313598004757 homodimer interface [polypeptide binding]; other site 313598004758 active site 313598004759 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 313598004760 core domain interface [polypeptide binding]; other site 313598004761 delta subunit interface [polypeptide binding]; other site 313598004762 epsilon subunit interface [polypeptide binding]; other site 313598004763 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 313598004764 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313598004765 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 313598004766 beta subunit interaction interface [polypeptide binding]; other site 313598004767 Walker A motif; other site 313598004768 ATP binding site [chemical binding]; other site 313598004769 Walker B motif; other site 313598004770 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313598004771 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 313598004772 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 313598004773 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 313598004774 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 313598004775 ATP synthase subunit C; Region: ATP-synt_C; cl00466 313598004776 ATP synthase A chain; Region: ATP-synt_A; cl00413 313598004777 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 313598004778 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 313598004779 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; cl00391 313598004780 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 313598004781 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313598004782 Walker A/P-loop; other site 313598004783 ATP binding site [chemical binding]; other site 313598004784 Q-loop/lid; other site 313598004785 ABC transporter signature motif; other site 313598004786 Walker B; other site 313598004787 D-loop; other site 313598004788 H-loop/switch region; other site 313598004789 Transcriptional regulator PadR-like family; Region: PadR; cl17335 313598004790 Predicted transcriptional regulators [Transcription]; Region: COG1695 313598004791 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 313598004792 catalytic residues [active] 313598004793 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 313598004794 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 313598004795 active site 313598004796 Zn binding site [ion binding]; other site 313598004797 C-terminal domain of CHU protein family; Region: CHU_C; cl17875 313598004798 Bacteroidetes-specific putative membrane protein; Region: Bac_Flav_fam_1; TIGR03519 313598004799 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313598004800 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313598004801 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313598004802 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313598004803 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 313598004804 active site 313598004805 catalytic residues [active] 313598004806 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 313598004807 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 313598004808 putative substrate translocation pore; other site 313598004809 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598004810 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 313598004811 active site 313598004812 phosphorylation site [posttranslational modification] 313598004813 intermolecular recognition site; other site 313598004814 dimerization interface [polypeptide binding]; other site 313598004815 LytTr DNA-binding domain; Region: LytTR; smart00850 313598004816 Histidine kinase; Region: His_kinase; pfam06580 313598004817 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598004818 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598004819 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 313598004820 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 313598004821 starch binding outer membrane protein SusD; Region: SusD; cl17845 313598004822 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 313598004823 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 313598004824 active site 313598004825 trimer interface [polypeptide binding]; other site 313598004826 allosteric site; other site 313598004827 active site lid [active] 313598004828 hexamer (dimer of trimers) interface [polypeptide binding]; other site 313598004829 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313598004830 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 313598004831 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in...; Region: GH20_chitobiase-like_1; cd06570 313598004832 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 313598004833 active site 313598004834 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 313598004835 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 313598004836 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313598004837 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313598004838 substrate binding pocket [chemical binding]; other site 313598004839 chain length determination region; other site 313598004840 substrate-Mg2+ binding site; other site 313598004841 catalytic residues [active] 313598004842 aspartate-rich region 1; other site 313598004843 active site lid residues [active] 313598004844 aspartate-rich region 2; other site 313598004845 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313598004846 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313598004847 Outer membrane efflux protein; Region: OEP; pfam02321 313598004848 Outer membrane efflux protein; Region: OEP; pfam02321 313598004849 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313598004850 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313598004851 HlyD family secretion protein; Region: HlyD_3; pfam13437 313598004852 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313598004853 RecX family; Region: RecX; pfam02631 313598004854 SnoaL-like domain; Region: SnoaL_3; pfam13474 313598004855 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 313598004856 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313598004857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598004858 NAD(P) binding site [chemical binding]; other site 313598004859 active site 313598004860 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 313598004861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598004862 Walker A/P-loop; other site 313598004863 ATP binding site [chemical binding]; other site 313598004864 Q-loop/lid; other site 313598004865 ABC transporter signature motif; other site 313598004866 Walker B; other site 313598004867 D-loop; other site 313598004868 H-loop/switch region; other site 313598004869 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 313598004870 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598004871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598004872 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313598004873 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313598004874 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313598004875 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 313598004876 dimer interface [polypeptide binding]; other site 313598004877 active site 313598004878 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 313598004879 active site 2 [active] 313598004880 active site 1 [active] 313598004881 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 313598004882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598004883 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 313598004884 NAD(P) binding site [chemical binding]; other site 313598004885 active site 313598004886 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 313598004887 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 313598004888 malonyl-CoA binding site [chemical binding]; other site 313598004889 dimer interface [polypeptide binding]; other site 313598004890 active site 313598004891 product binding site; other site 313598004892 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313598004893 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 313598004894 S-adenosylmethionine binding site [chemical binding]; other site 313598004895 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313598004896 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598004897 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 313598004898 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 313598004899 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598004900 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313598004901 hydroxyglutarate oxidase; Provisional; Region: PRK11728 313598004902 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598004903 Coenzyme A binding pocket [chemical binding]; other site 313598004904 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 313598004905 active site 313598004906 DNA polymerase IV; Validated; Region: PRK02406 313598004907 DNA binding site [nucleotide binding] 313598004908 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313598004909 glutamate dehydrogenase; Provisional; Region: PRK09414 313598004910 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313598004911 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 313598004912 NAD(P) binding site [chemical binding]; other site 313598004913 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 313598004914 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 313598004915 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 313598004916 dimer interface [polypeptide binding]; other site 313598004917 motif 1; other site 313598004918 active site 313598004919 motif 2; other site 313598004920 motif 3; other site 313598004921 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 313598004922 glycerol kinase; Provisional; Region: glpK; PRK00047 313598004923 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 313598004924 N- and C-terminal domain interface [polypeptide binding]; other site 313598004925 active site 313598004926 MgATP binding site [chemical binding]; other site 313598004927 catalytic site [active] 313598004928 metal binding site [ion binding]; metal-binding site 313598004929 glycerol binding site [chemical binding]; other site 313598004930 homotetramer interface [polypeptide binding]; other site 313598004931 homodimer interface [polypeptide binding]; other site 313598004932 FBP binding site [chemical binding]; other site 313598004933 protein IIAGlc interface [polypeptide binding]; other site 313598004934 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 313598004935 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 313598004936 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 313598004937 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 313598004938 Probable Catalytic site; other site 313598004939 Protein of unknown function, DUF547; Region: DUF547; pfam04784 313598004940 H+ Antiporter protein; Region: 2A0121; TIGR00900 313598004941 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 313598004942 putative substrate translocation pore; other site 313598004943 Family description; Region: ACT_7; pfam13840 313598004944 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 313598004945 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313598004946 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 313598004947 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 313598004948 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313598004949 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 313598004950 trimer interface [polypeptide binding]; other site 313598004951 active site 313598004952 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313598004953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598004954 Coenzyme A binding pocket [chemical binding]; other site 313598004955 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 313598004956 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 313598004957 hexamer interface [polypeptide binding]; other site 313598004958 Walker A motif; other site 313598004959 ATP binding site [chemical binding]; other site 313598004960 Walker B motif; other site 313598004961 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 313598004962 active site 313598004963 catalytic residues [active] 313598004964 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313598004965 pseudouridine synthase; Region: TIGR00093 313598004966 active site 313598004967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313598004968 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 313598004969 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 313598004970 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 313598004971 ribonuclease R; Region: RNase_R; TIGR02063 313598004972 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 313598004973 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 313598004974 RNB domain; Region: RNB; pfam00773 313598004975 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 313598004976 RNA binding site [nucleotide binding]; other site 313598004977 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 313598004978 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313598004979 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 313598004980 LytTr DNA-binding domain; Region: LytTR; smart00850 313598004981 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313598004982 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 313598004983 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 313598004984 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313598004985 HIGH motif; other site 313598004986 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313598004987 active site 313598004988 KMSKS motif; other site 313598004989 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 313598004990 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 313598004991 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 313598004992 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 313598004993 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313598004994 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 313598004995 S-adenosylmethionine binding site [chemical binding]; other site 313598004996 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 313598004997 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313598004998 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313598004999 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 313598005000 putative ligand binding site [chemical binding]; other site 313598005001 putative NAD binding site [chemical binding]; other site 313598005002 catalytic site [active] 313598005003 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 313598005004 oligomerization interface [polypeptide binding]; other site 313598005005 active site 313598005006 metal binding site [ion binding]; metal-binding site 313598005007 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 313598005008 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598005009 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 313598005010 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 313598005011 DNA binding residues [nucleotide binding] 313598005012 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 313598005013 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 313598005014 S-adenosylmethionine binding site [chemical binding]; other site 313598005015 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 313598005016 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 313598005017 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 313598005018 MutS domain I; Region: MutS_I; pfam01624 313598005019 MutS domain II; Region: MutS_II; pfam05188 313598005020 MutS domain III; Region: MutS_III; pfam05192 313598005021 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 313598005022 Walker A/P-loop; other site 313598005023 ATP binding site [chemical binding]; other site 313598005024 Q-loop/lid; other site 313598005025 ABC transporter signature motif; other site 313598005026 Walker B; other site 313598005027 D-loop; other site 313598005028 H-loop/switch region; other site 313598005029 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598005030 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 313598005031 MgtE intracellular N domain; Region: MgtE_N; pfam03448 313598005032 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 313598005033 Divalent cation transporter; Region: MgtE; pfam01769 313598005034 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 313598005035 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 313598005036 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 313598005037 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 313598005038 binding surface 313598005039 TPR motif; other site 313598005040 seryl-tRNA synthetase; Provisional; Region: PRK05431 313598005041 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 313598005042 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 313598005043 dimer interface [polypeptide binding]; other site 313598005044 active site 313598005045 motif 1; other site 313598005046 motif 2; other site 313598005047 motif 3; other site 313598005048 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 313598005049 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 313598005050 active site 313598005051 Riboflavin kinase; Region: Flavokinase; pfam01687 313598005052 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005053 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598005054 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598005055 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 313598005056 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 313598005057 catalytic triad [active] 313598005058 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598005059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598005060 Sensors of blue-light using FAD; Region: BLUF; pfam04940 313598005061 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313598005062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598005063 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 313598005064 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 313598005065 catalytic motif [active] 313598005066 Zn binding site [ion binding]; other site 313598005067 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598005068 C-terminal peptidase (prc); Region: prc; TIGR00225 313598005069 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 313598005070 protein binding site [polypeptide binding]; other site 313598005071 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313598005072 Catalytic dyad [active] 313598005073 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313598005074 putative active site [active] 313598005075 putative metal binding site [ion binding]; other site 313598005076 MoxR-like ATPases [General function prediction only]; Region: COG0714 313598005077 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 313598005078 ATP binding site [chemical binding]; other site 313598005079 Walker A motif; other site 313598005080 Walker B motif; other site 313598005081 arginine finger; other site 313598005082 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313598005083 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313598005084 metal ion-dependent adhesion site (MIDAS); other site 313598005085 Oxygen tolerance; Region: BatD; pfam13584 313598005086 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 313598005087 metal ion-dependent adhesion site (MIDAS); other site 313598005088 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313598005089 von Willebrand factor type A domain; Region: VWA_2; pfam13519 313598005090 metal ion-dependent adhesion site (MIDAS); other site 313598005091 TPR repeat; Region: TPR_11; pfam13414 313598005092 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 313598005093 TPR motif; other site 313598005094 binding surface 313598005095 TPR repeat; Region: TPR_11; pfam13414 313598005096 Oxygen tolerance; Region: BatD; pfam13584 313598005097 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 313598005098 binding surface 313598005099 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313598005100 TPR motif; other site 313598005101 Bacterial SH3 domain homologues; Region: SH3b; smart00287 313598005102 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313598005103 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313598005104 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313598005105 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_cladeC; cd03378 313598005106 active site clefts [active] 313598005107 zinc binding site [ion binding]; other site 313598005108 dimer interface [polypeptide binding]; other site 313598005109 Colicin V production protein; Region: Colicin_V; pfam02674 313598005110 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 313598005111 short chain dehydrogenase; Provisional; Region: PRK06181 313598005112 NADP binding site [chemical binding]; other site 313598005113 homodimer interface [polypeptide binding]; other site 313598005114 substrate binding site [chemical binding]; other site 313598005115 active site 313598005116 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 313598005117 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598005118 catalytic residues [active] 313598005119 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 313598005120 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598005121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598005122 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313598005123 Beta-lactamase; Region: Beta-lactamase; pfam00144 313598005124 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 313598005125 dimer interface [polypeptide binding]; other site 313598005126 catalytic triad [active] 313598005127 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 313598005128 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 313598005129 active site 313598005130 HIGH motif; other site 313598005131 KMSKS motif; other site 313598005132 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 313598005133 tRNA binding surface [nucleotide binding]; other site 313598005134 anticodon binding site; other site 313598005135 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 313598005136 dimer interface [polypeptide binding]; other site 313598005137 putative tRNA-binding site [nucleotide binding]; other site 313598005138 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 313598005139 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 313598005140 putative substrate translocation pore; other site 313598005141 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 313598005142 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 313598005143 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 313598005144 putative active site [active] 313598005145 Zn binding site [ion binding]; other site 313598005146 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313598005147 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598005148 ligand binding site [chemical binding]; other site 313598005149 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313598005150 DoxX; Region: DoxX; pfam07681 313598005151 Helix-turn-helix domain; Region: HTH_18; pfam12833 313598005152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598005153 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313598005154 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598005155 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313598005156 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598005157 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313598005158 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313598005159 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 313598005160 catalytic loop [active] 313598005161 iron binding site [ion binding]; other site 313598005162 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313598005163 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 313598005164 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313598005165 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 313598005166 dimer interface [polypeptide binding]; other site 313598005167 ssDNA binding site [nucleotide binding]; other site 313598005168 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313598005169 FOG: CBS domain [General function prediction only]; Region: COG0517 313598005170 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 313598005171 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 313598005172 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598005173 metal binding site [ion binding]; metal-binding site 313598005174 Phosphoglycerate kinase; Region: PGK; pfam00162 313598005175 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 313598005176 substrate binding site [chemical binding]; other site 313598005177 hinge regions; other site 313598005178 ADP binding site [chemical binding]; other site 313598005179 catalytic site [active] 313598005180 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 313598005181 DNA polymerase III subunit delta'; Validated; Region: PRK08485 313598005182 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 313598005183 Lumazine binding domain; Region: Lum_binding; pfam00677 313598005184 Lumazine binding domain; Region: Lum_binding; pfam00677 313598005185 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 313598005186 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 313598005187 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 313598005188 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 313598005189 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313598005190 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 313598005191 dimer interface [polypeptide binding]; other site 313598005192 active site 313598005193 CoA binding pocket [chemical binding]; other site 313598005194 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 313598005195 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 313598005196 carboxyltransferase (CT) interaction site; other site 313598005197 biotinylation site [posttranslational modification]; other site 313598005198 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 313598005199 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313598005200 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 313598005201 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313598005202 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 313598005203 putative DNA binding site [nucleotide binding]; other site 313598005204 putative Zn2+ binding site [ion binding]; other site 313598005205 AsnC family; Region: AsnC_trans_reg; pfam01037 313598005206 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313598005207 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 313598005208 active site 313598005209 phosphorylation site [posttranslational modification] 313598005210 intermolecular recognition site; other site 313598005211 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 313598005212 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598005213 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 313598005214 active site 313598005215 phosphorylation site [posttranslational modification] 313598005216 intermolecular recognition site; other site 313598005217 dimerization interface [polypeptide binding]; other site 313598005218 LytTr DNA-binding domain; Region: LytTR; smart00850 313598005219 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 313598005220 EamA-like transporter family; Region: EamA; cl17759 313598005221 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 313598005222 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 313598005223 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598005224 active site 313598005225 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 313598005226 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 313598005227 5S rRNA interface [nucleotide binding]; other site 313598005228 CTC domain interface [polypeptide binding]; other site 313598005229 L16 interface [polypeptide binding]; other site 313598005230 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 313598005231 putative active site [active] 313598005232 catalytic residue [active] 313598005233 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 313598005234 active site 313598005235 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313598005236 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598005237 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 313598005238 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 313598005239 active site 313598005240 (T/H)XGH motif; other site 313598005241 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 313598005242 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 313598005243 catalytic site [active] 313598005244 G-X2-G-X-G-K; other site 313598005245 hypothetical protein; Provisional; Region: PRK11820 313598005246 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 313598005247 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 313598005248 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313598005249 EamA-like transporter family; Region: EamA; pfam00892 313598005250 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598005251 active site 313598005252 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 313598005253 S-adenosylmethionine binding site [chemical binding]; other site 313598005254 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 313598005255 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 313598005256 DNA binding site [nucleotide binding] 313598005257 active site 313598005258 Domain of unknown function DUF59; Region: DUF59; pfam01883 313598005259 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 313598005260 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 313598005261 Walker A motif; other site 313598005262 NifU-like domain; Region: NifU; pfam01106 313598005263 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313598005264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598005265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598005266 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 313598005267 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 313598005268 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 313598005269 dimer interface [polypeptide binding]; other site 313598005270 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 313598005271 active site 313598005272 Fe binding site [ion binding]; other site 313598005273 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 313598005274 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 313598005275 putative peptidase; Provisional; Region: PRK11649 313598005276 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598005277 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 313598005278 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 313598005279 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 313598005280 active site 313598005281 dimer interface [polypeptide binding]; other site 313598005282 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 313598005283 dimer interface [polypeptide binding]; other site 313598005284 active site 313598005285 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005286 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598005287 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 313598005288 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598005289 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313598005290 putative acyl-acceptor binding pocket; other site 313598005291 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 313598005292 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 313598005293 homodimer interface [polypeptide binding]; other site 313598005294 putative substrate binding pocket [chemical binding]; other site 313598005295 diiron center [ion binding]; other site 313598005296 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 313598005297 C-N hydrolase family amidase; Provisional; Region: PRK10438 313598005298 putative active site [active] 313598005299 catalytic triad [active] 313598005300 dimer interface [polypeptide binding]; other site 313598005301 multimer interface [polypeptide binding]; other site 313598005302 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313598005303 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 313598005304 Ligand Binding Site [chemical binding]; other site 313598005305 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 313598005306 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313598005307 HAMP domain; Region: HAMP; pfam00672 313598005308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313598005309 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 313598005310 dimer interface [polypeptide binding]; other site 313598005311 phosphorylation site [posttranslational modification] 313598005312 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 313598005313 ATP binding site [chemical binding]; other site 313598005314 Mg2+ binding site [ion binding]; other site 313598005315 G-X-G motif; other site 313598005316 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 313598005317 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 313598005318 substrate binding site [chemical binding]; other site 313598005319 oxyanion hole (OAH) forming residues; other site 313598005320 trimer interface [polypeptide binding]; other site 313598005321 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313598005322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598005323 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 313598005324 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 313598005325 Disulphide isomerase; Region: Disulph_isomer; pfam06491 313598005326 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 313598005327 putative metal binding site [ion binding]; other site 313598005328 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 313598005329 HSP70 interaction site [polypeptide binding]; other site 313598005330 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 313598005331 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 313598005332 HIGH motif; other site 313598005333 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598005334 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598005335 active site 313598005336 KMSKS motif; other site 313598005337 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 313598005338 tRNA binding surface [nucleotide binding]; other site 313598005339 anticodon binding site; other site 313598005340 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 313598005341 lipoprotein signal peptidase; Provisional; Region: PRK14788 313598005342 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 313598005343 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313598005344 GIY-YIG motif/motif A; other site 313598005345 active site 313598005346 catalytic site [active] 313598005347 putative DNA binding site [nucleotide binding]; other site 313598005348 metal binding site [ion binding]; metal-binding site 313598005349 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 313598005350 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 313598005351 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 313598005352 active site 313598005353 nucleophile elbow; other site 313598005354 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598005355 Phosphate transporter family; Region: PHO4; pfam01384 313598005356 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005357 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 313598005358 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 313598005359 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 313598005360 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 313598005361 metal-binding site [ion binding] 313598005362 EamA-like transporter family; Region: EamA; pfam00892 313598005363 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313598005364 EamA-like transporter family; Region: EamA; pfam00892 313598005365 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313598005366 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313598005367 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313598005368 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313598005369 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313598005370 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313598005371 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 313598005372 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 313598005373 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313598005374 Histidine kinase; Region: HisKA_2; pfam07568 313598005375 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 313598005376 ATP binding site [chemical binding]; other site 313598005377 Mg2+ binding site [ion binding]; other site 313598005378 G-X-G motif; other site 313598005379 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598005380 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 313598005381 active site 313598005382 phosphorylation site [posttranslational modification] 313598005383 intermolecular recognition site; other site 313598005384 dimerization interface [polypeptide binding]; other site 313598005385 LytTr DNA-binding domain; Region: LytTR; smart00850 313598005386 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 313598005387 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 313598005388 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 313598005389 Sulphur transport; Region: Sulf_transp; pfam04143 313598005390 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 313598005391 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 313598005392 FeS/SAM binding site; other site 313598005393 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 313598005394 Pleckstrin homology-like domain; Region: PH-like; cl17171 313598005395 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 313598005396 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 313598005397 dimer interface [polypeptide binding]; other site 313598005398 putative functional site; other site 313598005399 putative MPT binding site; other site 313598005400 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 313598005401 trimer interface [polypeptide binding]; other site 313598005402 dimer interface [polypeptide binding]; other site 313598005403 putative active site [active] 313598005404 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 313598005405 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 313598005406 GTP binding site; other site 313598005407 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 313598005408 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 313598005409 ATP binding site [chemical binding]; other site 313598005410 substrate interface [chemical binding]; other site 313598005411 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 313598005412 active site residue [active] 313598005413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598005414 Walker A/P-loop; other site 313598005415 ATP binding site [chemical binding]; other site 313598005416 Q-loop/lid; other site 313598005417 ABC transporter signature motif; other site 313598005418 Walker B; other site 313598005419 D-loop; other site 313598005420 H-loop/switch region; other site 313598005421 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 313598005422 gliding motility-associated protein GldE; Region: GldE; TIGR03520 313598005423 Domain of unknown function DUF21; Region: DUF21; pfam01595 313598005424 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 313598005425 Transporter associated domain; Region: CorC_HlyC; smart01091 313598005426 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313598005427 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 313598005428 dimer interface [polypeptide binding]; other site 313598005429 ssDNA binding site [nucleotide binding]; other site 313598005430 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313598005431 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 313598005432 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313598005433 minor groove reading motif; other site 313598005434 helix-hairpin-helix signature motif; other site 313598005435 substrate binding pocket [chemical binding]; other site 313598005436 active site 313598005437 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 313598005438 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 313598005439 DNA binding and oxoG recognition site [nucleotide binding] 313598005440 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 313598005441 IHF - DNA interface [nucleotide binding]; other site 313598005442 IHF dimer interface [polypeptide binding]; other site 313598005443 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 313598005444 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 313598005445 homodimer interface [polypeptide binding]; other site 313598005446 oligonucleotide binding site [chemical binding]; other site 313598005447 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313598005448 putative catalytic site [active] 313598005449 putative metal binding site [ion binding]; other site 313598005450 putative phosphate binding site [ion binding]; other site 313598005451 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005452 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 313598005453 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598005454 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598005455 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 313598005456 dimer interface [polypeptide binding]; other site 313598005457 substrate binding site [chemical binding]; other site 313598005458 metal binding site [ion binding]; metal-binding site 313598005459 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 313598005460 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 313598005461 Bacitracin resistance protein BacA; Region: BacA; pfam02673 313598005462 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 313598005463 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 313598005464 RNA binding site [nucleotide binding]; other site 313598005465 active site 313598005466 amino acid transporter; Region: 2A0306; TIGR00909 313598005467 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313598005468 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 313598005469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598005470 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313598005471 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 313598005472 DNA binding residues [nucleotide binding] 313598005473 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005474 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313598005475 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 313598005476 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598005477 hypothetical protein; Provisional; Region: PRK09256 313598005478 AAA domain; Region: AAA_28; pfam13521 313598005479 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 313598005480 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 313598005481 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 313598005482 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313598005483 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 313598005484 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 313598005485 homotetramer interface [polypeptide binding]; other site 313598005486 ligand binding site [chemical binding]; other site 313598005487 catalytic site [active] 313598005488 NAD binding site [chemical binding]; other site 313598005489 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 313598005490 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 313598005491 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 313598005492 transmembrane helices; other site 313598005493 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 313598005494 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 313598005495 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 313598005496 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 313598005497 Alginate lyase; Region: Alginate_lyase2; pfam08787 313598005498 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 313598005499 ATP-binding site [chemical binding]; other site 313598005500 Gluconate-6-phosphate binding site [chemical binding]; other site 313598005501 Shikimate kinase; Region: SKI; pfam01202 313598005502 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 313598005503 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 313598005504 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 313598005505 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 313598005506 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 313598005507 Alginate lyase; Region: Alginate_lyase2; pfam08787 313598005508 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 313598005509 classical (c) SDRs; Region: SDR_c; cd05233 313598005510 NAD(P) binding site [chemical binding]; other site 313598005511 active site 313598005512 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598005513 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 313598005514 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 313598005515 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 313598005516 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598005517 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005518 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598005519 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 313598005520 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313598005521 starch binding outer membrane protein SusD; Region: SusD; cl17845 313598005522 SusD family; Region: SusD; pfam07980 313598005523 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313598005524 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313598005525 Transcriptional regulators [Transcription]; Region: FadR; COG2186 313598005526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313598005527 DNA-binding site [nucleotide binding]; DNA binding site 313598005528 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 313598005529 D-galactonate transporter; Region: 2A0114; TIGR00893 313598005530 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 313598005531 putative substrate translocation pore; other site 313598005532 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 313598005533 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313598005534 classical (c) SDRs; Region: SDR_c; cd05233 313598005535 NAD(P) binding site [chemical binding]; other site 313598005536 active site 313598005537 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598005538 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005539 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313598005540 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313598005541 starch binding outer membrane protein SusD; Region: SusD; cd08977 313598005542 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 313598005543 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 313598005544 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 313598005545 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 313598005546 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 313598005547 active site 313598005548 DNA binding site [nucleotide binding] 313598005549 Int/Topo IB signature motif; other site 313598005550 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 313598005551 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 313598005552 catalytic residues [active] 313598005553 catalytic nucleophile [active] 313598005554 Recombinase; Region: Recombinase; pfam07508 313598005555 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 313598005556 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 313598005557 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313598005558 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 313598005559 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 313598005560 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 313598005561 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 313598005562 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 313598005563 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 313598005564 Ligand Binding Site [chemical binding]; other site 313598005565 TilS substrate C-terminal domain; Region: TilS_C; smart00977 313598005566 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 313598005567 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313598005568 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313598005569 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 313598005570 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313598005571 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 313598005572 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 313598005573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598005574 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313598005575 Haem-binding domain; Region: Haem_bd; pfam14376 313598005576 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598005577 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 313598005578 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005579 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005580 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 313598005581 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 313598005582 active site 313598005583 Zn binding site [ion binding]; other site 313598005584 AIR carboxylase; Region: AIRC; pfam00731 313598005585 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 313598005586 ATP-grasp domain; Region: ATP-grasp; pfam02222 313598005587 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 313598005588 iron-sulfur cluster [ion binding]; other site 313598005589 [2Fe-2S] cluster binding site [ion binding]; other site 313598005590 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 313598005591 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 313598005592 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313598005593 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 313598005594 nucleotide binding site/active site [active] 313598005595 HIT family signature motif; other site 313598005596 catalytic residue [active] 313598005597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598005598 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 313598005599 phosphorylation site [posttranslational modification] 313598005600 dimer interface [polypeptide binding]; other site 313598005601 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 313598005602 ATP binding site [chemical binding]; other site 313598005603 Mg2+ binding site [ion binding]; other site 313598005604 G-X-G motif; other site 313598005605 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 313598005606 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 313598005607 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 313598005608 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 313598005609 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 313598005610 Membrane protein of unknown function; Region: DUF360; pfam04020 313598005611 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 313598005612 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313598005613 ligand binding site [chemical binding]; other site 313598005614 flexible hinge region; other site 313598005615 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 313598005616 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313598005617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598005618 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 313598005619 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 313598005620 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313598005621 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313598005622 active site 313598005623 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 313598005624 active site 313598005625 catalytic residues [active] 313598005626 DNA polymerase I; Provisional; Region: PRK05755 313598005627 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 313598005628 active site 313598005629 metal binding site 1 [ion binding]; metal-binding site 313598005630 putative 5' ssDNA interaction site; other site 313598005631 metal binding site 3; metal-binding site 313598005632 metal binding site 2 [ion binding]; metal-binding site 313598005633 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 313598005634 putative DNA binding site [nucleotide binding]; other site 313598005635 putative metal binding site [ion binding]; other site 313598005636 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 313598005637 active site 313598005638 catalytic site [active] 313598005639 substrate binding site [chemical binding]; other site 313598005640 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 313598005641 active site 313598005642 DNA binding site [nucleotide binding] 313598005643 catalytic site [active] 313598005644 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313598005645 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313598005646 phosphodiesterase YaeI; Provisional; Region: PRK11340 313598005647 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 313598005648 putative active site [active] 313598005649 putative metal binding site [ion binding]; other site 313598005650 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 313598005651 catalytic residues [active] 313598005652 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 313598005653 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313598005654 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313598005655 DNA binding site [nucleotide binding] 313598005656 domain linker motif; other site 313598005657 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 313598005658 dimerization interface [polypeptide binding]; other site 313598005659 ligand binding site [chemical binding]; other site 313598005660 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313598005661 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 313598005662 substrate binding site [chemical binding]; other site 313598005663 ATP binding site [chemical binding]; other site 313598005664 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 313598005665 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 313598005666 active site 313598005667 intersubunit interface [polypeptide binding]; other site 313598005668 catalytic residue [active] 313598005669 Predicted membrane protein [Function unknown]; Region: COG2323 313598005670 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 313598005671 dimer interface [polypeptide binding]; other site 313598005672 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598005673 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 313598005674 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313598005675 ATP-dependent DNA ligase; Validated; Region: PRK09247 313598005676 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 313598005677 active site 313598005678 DNA binding site [nucleotide binding] 313598005679 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 313598005680 DNA binding site [nucleotide binding] 313598005681 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 313598005682 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 313598005683 ATP binding site [chemical binding]; other site 313598005684 putative Mg++ binding site [ion binding]; other site 313598005685 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 313598005686 nucleotide binding region [chemical binding]; other site 313598005687 ATP-binding site [chemical binding]; other site 313598005688 DEAD/H associated; Region: DEAD_assoc; pfam08494 313598005689 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 313598005690 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313598005691 putative active site [active] 313598005692 putative metal binding site [ion binding]; other site 313598005693 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005694 threonine synthase; Validated; Region: PRK09225 313598005695 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 313598005696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598005697 catalytic residue [active] 313598005698 homoserine kinase; Provisional; Region: PRK01212 313598005699 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 313598005700 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 313598005701 putative catalytic residues [active] 313598005702 putative nucleotide binding site [chemical binding]; other site 313598005703 putative aspartate binding site [chemical binding]; other site 313598005704 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 313598005705 dimer interface [polypeptide binding]; other site 313598005706 putative threonine allosteric regulatory site; other site 313598005707 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 313598005708 putative threonine allosteric regulatory site; other site 313598005709 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313598005710 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313598005711 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 313598005712 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 313598005713 active site 313598005714 catalytic residues [active] 313598005715 metal binding site [ion binding]; metal-binding site 313598005716 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 313598005717 tartrate dehydrogenase; Region: TTC; TIGR02089 313598005718 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 313598005719 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 313598005720 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 313598005721 PYR/PP interface [polypeptide binding]; other site 313598005722 dimer interface [polypeptide binding]; other site 313598005723 TPP binding site [chemical binding]; other site 313598005724 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 313598005725 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 313598005726 TPP-binding site [chemical binding]; other site 313598005727 dimer interface [polypeptide binding]; other site 313598005728 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 313598005729 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 313598005730 putative valine binding site [chemical binding]; other site 313598005731 dimer interface [polypeptide binding]; other site 313598005732 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 313598005733 ketol-acid reductoisomerase; Validated; Region: PRK05225 313598005734 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 313598005735 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313598005736 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313598005737 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 313598005738 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313598005739 tetrameric interface [polypeptide binding]; other site 313598005740 activator binding site; other site 313598005741 NADP binding site [chemical binding]; other site 313598005742 substrate binding site [chemical binding]; other site 313598005743 catalytic residues [active] 313598005744 Sporulation related domain; Region: SPOR; cl10051 313598005745 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313598005746 Cytochrome c; Region: Cytochrom_C; pfam00034 313598005747 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 313598005748 heme-binding residues [chemical binding]; other site 313598005749 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 313598005750 molybdopterin cofactor binding site; other site 313598005751 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 313598005752 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 313598005753 4Fe-4S binding domain; Region: Fer4_2; pfam12797 313598005754 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 313598005755 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 313598005756 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 313598005757 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313598005758 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 313598005759 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 313598005760 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 313598005761 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 313598005762 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 313598005763 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 313598005764 Walker A motif; other site 313598005765 ATP binding site [chemical binding]; other site 313598005766 Walker B motif; other site 313598005767 arginine finger; other site 313598005768 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 313598005769 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313598005770 high affinity sulphate transporter 1; Region: sulP; TIGR00815 313598005771 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313598005772 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 313598005773 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313598005774 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 313598005775 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 313598005776 active site residue [active] 313598005777 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 313598005778 active site residue [active] 313598005779 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 313598005780 active site residue [active] 313598005781 TPR repeat; Region: TPR_11; pfam13414 313598005782 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 313598005783 binding surface 313598005784 TPR motif; other site 313598005785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598005786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598005787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598005788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598005789 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313598005790 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313598005791 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 313598005792 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 313598005793 elongation factor Ts; Provisional; Region: tsf; PRK09377 313598005794 UBA/TS-N domain; Region: UBA; pfam00627 313598005795 Elongation factor TS; Region: EF_TS; pfam00889 313598005796 Elongation factor TS; Region: EF_TS; pfam00889 313598005797 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 313598005798 rRNA interaction site [nucleotide binding]; other site 313598005799 S8 interaction site; other site 313598005800 putative laminin-1 binding site; other site 313598005801 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 313598005802 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 313598005803 23S rRNA interface [nucleotide binding]; other site 313598005804 L3 interface [polypeptide binding]; other site 313598005805 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313598005806 putative ligand binding site [chemical binding]; other site 313598005807 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 313598005808 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 313598005809 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598005810 active site 313598005811 HIGH motif; other site 313598005812 nucleotide binding site [chemical binding]; other site 313598005813 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313598005814 active site 313598005815 KMSKS motif; other site 313598005816 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 313598005817 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 313598005818 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 313598005819 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598005820 dimer interface [polypeptide binding]; other site 313598005821 putative metal binding site [ion binding]; other site 313598005822 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 313598005823 Dihydroneopterin aldolase; Region: FolB; smart00905 313598005824 active site 313598005825 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598005826 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 313598005827 active site 313598005828 metal binding site [ion binding]; metal-binding site 313598005829 CotH protein; Region: CotH; pfam08757 313598005830 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313598005831 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 313598005832 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 313598005833 active site 313598005834 catalytic triad [active] 313598005835 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313598005836 Zn binding site [ion binding]; other site 313598005837 LysE type translocator; Region: LysE; cl00565 313598005838 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 313598005839 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 313598005840 FAD binding pocket [chemical binding]; other site 313598005841 FAD binding motif [chemical binding]; other site 313598005842 phosphate binding motif [ion binding]; other site 313598005843 beta-alpha-beta structure motif; other site 313598005844 NAD(p) ribose binding residues [chemical binding]; other site 313598005845 NAD binding pocket [chemical binding]; other site 313598005846 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 313598005847 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 313598005848 catalytic loop [active] 313598005849 iron binding site [ion binding]; other site 313598005850 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 313598005851 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313598005852 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 313598005853 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 313598005854 active site residue [active] 313598005855 PSP1 C-terminal conserved region; Region: PSP1; cl00770 313598005856 GldH lipoprotein; Region: GldH_lipo; pfam14109 313598005857 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 313598005858 Transglycosylase; Region: Transgly; pfam00912 313598005859 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313598005860 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 313598005861 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 313598005862 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 313598005863 putative active site [active] 313598005864 putative catalytic site [active] 313598005865 putative DNA binding site [nucleotide binding]; other site 313598005866 putative phosphate binding site [ion binding]; other site 313598005867 metal binding site A [ion binding]; metal-binding site 313598005868 putative AP binding site [nucleotide binding]; other site 313598005869 putative metal binding site B [ion binding]; other site 313598005870 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 313598005871 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313598005872 catalytic residue [active] 313598005873 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313598005874 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 313598005875 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 313598005876 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 313598005877 active site 313598005878 HIGH motif; other site 313598005879 dimer interface [polypeptide binding]; other site 313598005880 KMSKS motif; other site 313598005881 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313598005882 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313598005883 putative acyl-acceptor binding pocket; other site 313598005884 Haemolysin-III related; Region: HlyIII; cl03831 313598005885 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 313598005886 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 313598005887 putative active site [active] 313598005888 putative metal binding residues [ion binding]; other site 313598005889 signature motif; other site 313598005890 putative dimer interface [polypeptide binding]; other site 313598005891 putative phosphate binding site [ion binding]; other site 313598005892 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 313598005893 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 313598005894 Recombination protein O N terminal; Region: RecO_N; pfam11967 313598005895 Recombination protein O C terminal; Region: RecO_C; pfam02565 313598005896 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598005897 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 313598005898 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 313598005899 N-terminal plug; other site 313598005900 ligand-binding site [chemical binding]; other site 313598005901 SdpI/YhfL protein family; Region: SdpI; pfam13630 313598005902 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 313598005903 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 313598005904 active site 313598005905 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 313598005906 catalytic triad [active] 313598005907 dimer interface [polypeptide binding]; other site 313598005908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313598005909 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313598005910 HlyD family secretion protein; Region: HlyD_3; pfam13437 313598005911 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313598005912 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313598005913 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 313598005914 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313598005915 ligand binding site [chemical binding]; other site 313598005916 flexible hinge region; other site 313598005917 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 313598005918 non-specific DNA interactions [nucleotide binding]; other site 313598005919 DNA binding site [nucleotide binding] 313598005920 sequence specific DNA binding site [nucleotide binding]; other site 313598005921 putative cAMP binding site [chemical binding]; other site 313598005922 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 313598005923 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598005924 catalytic residues [active] 313598005925 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 313598005926 S-adenosylmethionine binding site [chemical binding]; other site 313598005927 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313598005928 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313598005929 active site 313598005930 ribonuclease P; Reviewed; Region: rnpA; PRK01903 313598005931 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 313598005932 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313598005933 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 313598005934 protein binding site [polypeptide binding]; other site 313598005935 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313598005936 Catalytic dyad [active] 313598005937 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 313598005938 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 313598005939 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 313598005940 NAD binding site [chemical binding]; other site 313598005941 substrate binding site [chemical binding]; other site 313598005942 homodimer interface [polypeptide binding]; other site 313598005943 active site 313598005944 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 313598005945 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 313598005946 substrate binding site; other site 313598005947 tetramer interface; other site 313598005948 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 313598005949 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313598005950 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 313598005951 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313598005952 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 313598005953 active site 313598005954 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598005955 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 313598005956 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 313598005957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598005958 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 313598005959 O-Antigen ligase; Region: Wzy_C; pfam04932 313598005960 Bacterial sugar transferase; Region: Bac_transf; pfam02397 313598005961 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313598005962 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 313598005963 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 313598005964 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 313598005965 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 313598005966 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 313598005967 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 313598005968 dimer interface [polypeptide binding]; other site 313598005969 phosphorylation site [posttranslational modification] 313598005970 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 313598005971 ATP binding site [chemical binding]; other site 313598005972 Mg2+ binding site [ion binding]; other site 313598005973 G-X-G motif; other site 313598005974 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313598005975 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 313598005976 active site 313598005977 phosphorylation site [posttranslational modification] 313598005978 intermolecular recognition site; other site 313598005979 dimerization interface [polypeptide binding]; other site 313598005980 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 313598005981 DNA binding site [nucleotide binding] 313598005982 Lamin Tail Domain; Region: LTD; pfam00932 313598005983 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598005984 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 313598005985 active site 313598005986 catalytic site [active] 313598005987 substrate binding site [chemical binding]; other site 313598005988 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313598005989 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598005990 Walker A/P-loop; other site 313598005991 ATP binding site [chemical binding]; other site 313598005992 ABC transporter signature motif; other site 313598005993 Walker B; other site 313598005994 D-loop; other site 313598005995 H-loop/switch region; other site 313598005996 ABC transporter; Region: ABC_tran_2; pfam12848 313598005997 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598005998 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 313598005999 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 313598006000 active site 313598006001 Substrate binding site; other site 313598006002 Mg++ binding site; other site 313598006003 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 313598006004 putative trimer interface [polypeptide binding]; other site 313598006005 putative CoA binding site [chemical binding]; other site 313598006006 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 313598006007 binding surface 313598006008 TPR motif; other site 313598006009 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 313598006010 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 313598006011 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598006012 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 313598006013 intracellular protease, PfpI family; Region: PfpI; TIGR01382 313598006014 proposed catalytic triad [active] 313598006015 conserved cys residue [active] 313598006016 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598006017 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 313598006018 Sporulation related domain; Region: SPOR; pfam05036 313598006019 DNA protecting protein DprA; Region: dprA; TIGR00732 313598006020 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 313598006021 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598006022 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598006023 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 313598006024 EamA-like transporter family; Region: EamA; pfam00892 313598006025 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313598006026 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 313598006027 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 313598006028 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 313598006029 ATP binding site [chemical binding]; other site 313598006030 putative Mg++ binding site [ion binding]; other site 313598006031 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 313598006032 nucleotide binding region [chemical binding]; other site 313598006033 ATP-binding site [chemical binding]; other site 313598006034 TRCF domain; Region: TRCF; pfam03461 313598006035 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 313598006036 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 313598006037 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598006038 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 313598006039 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 313598006040 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 313598006041 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 313598006042 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 313598006043 FeoA domain; Region: FeoA; pfam04023 313598006044 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 313598006045 putative recombination protein RecB; Provisional; Region: PRK13909 313598006046 Family description; Region: UvrD_C_2; pfam13538 313598006047 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313598006048 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313598006049 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 313598006050 substrate-cofactor binding pocket; other site 313598006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598006052 catalytic residue [active] 313598006053 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313598006054 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313598006055 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313598006056 ligand binding site [chemical binding]; other site 313598006057 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 313598006058 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313598006059 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 313598006060 alpha subunit interaction interface [polypeptide binding]; other site 313598006061 Walker A motif; other site 313598006062 ATP binding site [chemical binding]; other site 313598006063 Walker B motif; other site 313598006064 inhibitor binding site; inhibition site 313598006065 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313598006066 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 313598006067 gamma subunit interface [polypeptide binding]; other site 313598006068 LBP interface [polypeptide binding]; other site 313598006069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313598006070 Histidine kinase; Region: HisKA_3; pfam07730 313598006071 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 313598006072 ATP binding site [chemical binding]; other site 313598006073 Mg2+ binding site [ion binding]; other site 313598006074 G-X-G motif; other site 313598006075 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598006076 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 313598006077 active site 313598006078 phosphorylation site [posttranslational modification] 313598006079 intermolecular recognition site; other site 313598006080 dimerization interface [polypeptide binding]; other site 313598006081 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 313598006082 DNA binding residues [nucleotide binding] 313598006083 dimerization interface [polypeptide binding]; other site 313598006084 Ribosome-binding factor A; Region: RBFA; pfam02033 313598006085 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313598006086 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313598006087 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 313598006088 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 313598006089 FMN binding site [chemical binding]; other site 313598006090 active site 313598006091 catalytic residues [active] 313598006092 substrate binding site [chemical binding]; other site 313598006093 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 313598006094 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 313598006095 active site 313598006096 catalytic residues [active] 313598006097 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598006098 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 313598006099 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 313598006100 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598006101 metal binding site [ion binding]; metal-binding site 313598006102 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 313598006103 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598006104 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598006105 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598006106 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313598006107 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 313598006108 EF-hand domain pair; Region: EF_hand_5; pfam13499 313598006109 Ca2+ binding site [ion binding]; other site 313598006110 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 313598006111 Ca2+ binding site [ion binding]; other site 313598006112 GTP-binding protein LepA; Provisional; Region: PRK05433 313598006113 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 313598006114 G1 box; other site 313598006115 putative GEF interaction site [polypeptide binding]; other site 313598006116 GTP/Mg2+ binding site [chemical binding]; other site 313598006117 Switch I region; other site 313598006118 G2 box; other site 313598006119 G3 box; other site 313598006120 Switch II region; other site 313598006121 G4 box; other site 313598006122 G5 box; other site 313598006123 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 313598006124 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 313598006125 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 313598006126 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313598006127 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598006128 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 313598006129 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 313598006130 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 313598006131 active site 313598006132 homodimer interface [polypeptide binding]; other site 313598006133 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313598006134 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313598006135 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 313598006136 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 313598006137 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 313598006138 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 313598006139 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 313598006140 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 313598006141 putative dimer interface [polypeptide binding]; other site 313598006142 putative anticodon binding site; other site 313598006143 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 313598006144 homodimer interface [polypeptide binding]; other site 313598006145 motif 1; other site 313598006146 motif 2; other site 313598006147 active site 313598006148 motif 3; other site 313598006149 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 313598006150 binding surface 313598006151 TPR motif; other site 313598006152 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598006153 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 313598006154 binding surface 313598006155 TPR motif; other site 313598006156 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598006157 LytTr DNA-binding domain; Region: LytTR; pfam04397 313598006158 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598006159 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 313598006160 DNA binding residues [nucleotide binding] 313598006161 dimerization interface [polypeptide binding]; other site 313598006162 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 313598006163 Leucine rich repeat; Region: LRR_8; pfam13855 313598006164 Leucine-rich repeats; other site 313598006165 Substrate binding site [chemical binding]; other site 313598006166 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 313598006167 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 313598006168 Leucine rich repeat; Region: LRR_8; pfam13855 313598006169 Immunoglobulin domain; Region: Ig; cd00096 313598006170 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598006171 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 313598006172 Walker A motif; other site 313598006173 ATP binding site [chemical binding]; other site 313598006174 Walker B motif; other site 313598006175 PAS fold; Region: PAS_3; pfam08447 313598006176 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598006177 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 313598006178 DNA binding residues [nucleotide binding] 313598006179 dimerization interface [polypeptide binding]; other site 313598006180 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 313598006181 ribosome recycling factor; Reviewed; Region: frr; PRK00083 313598006182 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 313598006183 hinge region; other site 313598006184 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 313598006185 putative nucleotide binding site [chemical binding]; other site 313598006186 uridine monophosphate binding site [chemical binding]; other site 313598006187 homohexameric interface [polypeptide binding]; other site 313598006188 trigger factor; Provisional; Region: tig; PRK01490 313598006189 Clp protease; Region: CLP_protease; pfam00574 313598006190 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 313598006191 oligomer interface [polypeptide binding]; other site 313598006192 active site residues [active] 313598006193 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 313598006194 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 313598006195 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 313598006196 Walker A motif; other site 313598006197 ATP binding site [chemical binding]; other site 313598006198 Walker B motif; other site 313598006199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 313598006200 DNA primase, catalytic core; Region: dnaG; TIGR01391 313598006201 CHC2 zinc finger; Region: zf-CHC2; cl17510 313598006202 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 313598006203 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 313598006204 active site 313598006205 metal binding site [ion binding]; metal-binding site 313598006206 interdomain interaction site; other site 313598006207 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 313598006208 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 313598006209 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 313598006210 homodimer interface [polypeptide binding]; other site 313598006211 NAD binding pocket [chemical binding]; other site 313598006212 ATP binding pocket [chemical binding]; other site 313598006213 Mg binding site [ion binding]; other site 313598006214 active-site loop [active] 313598006215 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 313598006216 gliding motility-associated protein GldC; Region: GldC; TIGR03515 313598006217 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 313598006218 catalytic center binding site [active] 313598006219 ATP binding site [chemical binding]; other site 313598006220 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 313598006221 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 313598006222 Substrate-binding site [chemical binding]; other site 313598006223 Substrate specificity [chemical binding]; other site 313598006224 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 313598006225 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 313598006226 RNase E interface [polypeptide binding]; other site 313598006227 trimer interface [polypeptide binding]; other site 313598006228 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 313598006229 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 313598006230 RNase E interface [polypeptide binding]; other site 313598006231 trimer interface [polypeptide binding]; other site 313598006232 active site 313598006233 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 313598006234 putative nucleic acid binding region [nucleotide binding]; other site 313598006235 G-X-X-G motif; other site 313598006236 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 313598006237 RNA binding site [nucleotide binding]; other site 313598006238 domain interface; other site 313598006239 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 313598006240 16S/18S rRNA binding site [nucleotide binding]; other site 313598006241 S13e-L30e interaction site [polypeptide binding]; other site 313598006242 25S rRNA binding site [nucleotide binding]; other site 313598006243 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 313598006244 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 313598006245 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 313598006246 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 313598006247 active site 313598006248 intersubunit interface [polypeptide binding]; other site 313598006249 zinc binding site [ion binding]; other site 313598006250 Na+ binding site [ion binding]; other site 313598006251 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313598006252 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 313598006253 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598006254 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313598006255 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 313598006256 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598006257 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313598006258 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 313598006259 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 313598006260 S-adenosylmethionine binding site [chemical binding]; other site 313598006261 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313598006262 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313598006263 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 313598006264 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313598006265 prolyl-tRNA synthetase; Provisional; Region: PRK08661 313598006266 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_arch_euk; cd00778 313598006267 dimer interface [polypeptide binding]; other site 313598006268 motif 1; other site 313598006269 active site 313598006270 motif 2; other site 313598006271 motif 3; other site 313598006272 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 313598006273 anticodon binding site; other site 313598006274 zinc-binding site [ion binding]; other site 313598006275 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 313598006276 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 313598006277 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 313598006278 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313598006279 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313598006280 rod shape-determining protein MreC; Provisional; Region: PRK13922 313598006281 rod shape-determining protein MreC; Region: MreC; pfam04085 313598006282 rod shape-determining protein MreB; Provisional; Region: PRK13927 313598006283 MreB and similar proteins; Region: MreB_like; cd10225 313598006284 nucleotide binding site [chemical binding]; other site 313598006285 Mg binding site [ion binding]; other site 313598006286 putative protofilament interaction site [polypeptide binding]; other site 313598006287 RodZ interaction site [polypeptide binding]; other site 313598006288 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 313598006289 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 313598006290 purine monophosphate binding site [chemical binding]; other site 313598006291 dimer interface [polypeptide binding]; other site 313598006292 putative catalytic residues [active] 313598006293 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 313598006294 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 313598006295 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 313598006296 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313598006297 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598006298 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 313598006299 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313598006300 Heavy-metal-associated domain; Region: HMA; pfam00403 313598006301 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 313598006302 metal-binding site [ion binding] 313598006303 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 313598006304 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 313598006305 ring oligomerisation interface [polypeptide binding]; other site 313598006306 ATP/Mg binding site [chemical binding]; other site 313598006307 stacking interactions; other site 313598006308 hinge regions; other site 313598006309 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 313598006310 oligomerisation interface [polypeptide binding]; other site 313598006311 mobile loop; other site 313598006312 roof hairpin; other site 313598006313 Preprotein translocase SecG subunit; Region: SecG; pfam03840 313598006314 Lipopolysaccharide-assembly; Region: LptE; pfam04390 313598006315 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 313598006316 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313598006317 Walker A motif; other site 313598006318 ATP binding site [chemical binding]; other site 313598006319 Walker B motif; other site 313598006320 arginine finger; other site 313598006321 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313598006322 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 313598006323 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313598006324 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 313598006325 FeS/SAM binding site; other site 313598006326 TRAM domain; Region: TRAM; pfam01938 313598006327 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 313598006328 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 313598006329 active site 313598006330 interdomain interaction site; other site 313598006331 putative metal-binding site [ion binding]; other site 313598006332 nucleotide binding site [chemical binding]; other site 313598006333 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 313598006334 domain I; other site 313598006335 DNA binding groove [nucleotide binding] 313598006336 phosphate binding site [ion binding]; other site 313598006337 domain II; other site 313598006338 domain III; other site 313598006339 nucleotide binding site [chemical binding]; other site 313598006340 catalytic site [active] 313598006341 domain IV; other site 313598006342 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313598006343 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313598006344 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313598006345 putative active site [active] 313598006346 putative metal binding site [ion binding]; other site 313598006347 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 313598006348 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313598006349 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313598006350 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 313598006351 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 313598006352 GldM N-terminal domain; Region: GldM_N; pfam12081 313598006353 GldM C-terminal domain; Region: GldM_C; pfam12080 313598006354 gliding motility associated protien GldN; Region: GldN; TIGR03523 313598006355 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313598006356 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598006357 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313598006358 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598006359 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598006360 ABC transporter; Region: ABC_tran_2; pfam12848 313598006361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313598006362 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 313598006363 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 313598006364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598006365 catalytic residue [active] 313598006366 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 313598006367 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313598006368 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 313598006369 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 313598006370 trimer interface [polypeptide binding]; other site 313598006371 putative metal binding site [ion binding]; other site 313598006372 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313598006373 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598006374 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313598006375 putative catalytic site [active] 313598006376 putative metal binding site [ion binding]; other site 313598006377 putative phosphate binding site [ion binding]; other site 313598006378 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 313598006379 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 313598006380 Thiamine pyrophosphokinase; Region: TPK; cd07995 313598006381 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 313598006382 active site 313598006383 dimerization interface [polypeptide binding]; other site 313598006384 thiamine binding site [chemical binding]; other site 313598006385 Histidine kinase; Region: His_kinase; pfam06580 313598006386 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313598006387 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 313598006388 active site 313598006389 phosphorylation site [posttranslational modification] 313598006390 intermolecular recognition site; other site 313598006391 dimerization interface [polypeptide binding]; other site 313598006392 LytTr DNA-binding domain; Region: LytTR; smart00850 313598006393 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 313598006394 diphosphomevalonate decarboxylase; Region: PLN02407 313598006395 diphosphomevalonate decarboxylase; Region: PLN02407 313598006396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313598006397 mevalonate kinase; Region: mevalon_kin; TIGR00549 313598006398 UbiA prenyltransferase family; Region: UbiA; pfam01040 313598006399 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313598006400 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313598006401 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 313598006402 RNA binding surface [nucleotide binding]; other site 313598006403 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 313598006404 active site 313598006405 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313598006406 putative active site [active] 313598006407 putative metal binding site [ion binding]; other site 313598006408 imidazolonepropionase; Validated; Region: PRK09356 313598006409 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 313598006410 active site 313598006411 urocanate hydratase; Provisional; Region: PRK05414 313598006412 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 313598006413 active sites [active] 313598006414 tetramer interface [polypeptide binding]; other site 313598006415 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 313598006416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313598006417 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 313598006418 dimerization interface [polypeptide binding]; other site 313598006419 pantothenate kinase; Reviewed; Region: PRK13320 313598006420 tetratricopeptide repeat protein; Provisional; Region: PRK11788 313598006421 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 313598006422 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 313598006423 Domain of unknown function DUF21; Region: DUF21; pfam01595 313598006424 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 313598006425 Transporter associated domain; Region: CorC_HlyC; smart01091 313598006426 SurA N-terminal domain; Region: SurA_N_3; cl07813 313598006427 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 313598006428 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 313598006429 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 313598006430 transcription termination factor Rho; Provisional; Region: PRK12608 313598006431 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 313598006432 RNA binding site [nucleotide binding]; other site 313598006433 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 313598006434 multimer interface [polypeptide binding]; other site 313598006435 Walker A motif; other site 313598006436 ATP binding site [chemical binding]; other site 313598006437 Walker B motif; other site 313598006438 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 313598006439 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598006440 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 313598006441 active site 313598006442 phosphorylation site [posttranslational modification] 313598006443 intermolecular recognition site; other site 313598006444 dimerization interface [polypeptide binding]; other site 313598006445 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 313598006446 DNA binding residues [nucleotide binding] 313598006447 dimerization interface [polypeptide binding]; other site 313598006448 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 313598006449 TPR motif; other site 313598006450 binding surface 313598006451 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313598006452 Histidine kinase; Region: HisKA_3; pfam07730 313598006453 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 313598006454 ATP binding site [chemical binding]; other site 313598006455 G-X-G motif; other site 313598006456 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 313598006457 active site 313598006458 metal binding site [ion binding]; metal-binding site 313598006459 homotetramer interface [polypeptide binding]; other site 313598006460 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 313598006461 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 313598006462 dimerization interface 3.5A [polypeptide binding]; other site 313598006463 active site 313598006464 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313598006465 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313598006466 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 313598006467 Walker A/P-loop; other site 313598006468 ATP binding site [chemical binding]; other site 313598006469 Q-loop/lid; other site 313598006470 ABC transporter signature motif; other site 313598006471 Walker B; other site 313598006472 D-loop; other site 313598006473 H-loop/switch region; other site 313598006474 Uncharacterized conserved protein [Function unknown]; Region: COG1624 313598006475 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 313598006476 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 313598006477 DJ-1 family protein; Region: not_thiJ; TIGR01383 313598006478 conserved cys residue [active] 313598006479 Predicted acyl esterases [General function prediction only]; Region: COG2936 313598006480 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 313598006481 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 313598006482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598006483 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 313598006484 active site 313598006485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313598006486 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 313598006487 active site 313598006488 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 313598006489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 313598006490 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 313598006491 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 313598006492 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 313598006493 active site 313598006494 catalytic residues [active] 313598006495 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598006496 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 313598006497 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 313598006498 intersubunit interface [polypeptide binding]; other site 313598006499 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 313598006500 active site 313598006501 dimer interface [polypeptide binding]; other site 313598006502 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 313598006503 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313598006504 catalytic residues [active] 313598006505 triosephosphate isomerase; Provisional; Region: PRK14567 313598006506 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 313598006507 substrate binding site [chemical binding]; other site 313598006508 dimer interface [polypeptide binding]; other site 313598006509 catalytic triad [active] 313598006510 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 313598006511 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 313598006512 S-adenosylmethionine binding site [chemical binding]; other site 313598006513 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 313598006514 exodeoxyribonuclease X; Provisional; Region: PRK07983 313598006515 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 313598006516 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 313598006517 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313598006518 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313598006519 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 313598006520 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313598006521 putative substrate translocation pore; other site 313598006522 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 313598006523 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313598006524 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 313598006525 substrate binding site [chemical binding]; other site 313598006526 oxyanion hole (OAH) forming residues; other site 313598006527 trimer interface [polypeptide binding]; other site 313598006528 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 313598006529 DoxX; Region: DoxX; pfam07681 313598006530 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313598006531 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313598006532 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 313598006533 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 313598006534 dihydropteroate synthase; Region: DHPS; TIGR01496 313598006535 substrate binding pocket [chemical binding]; other site 313598006536 dimer interface [polypeptide binding]; other site 313598006537 inhibitor binding site; inhibition site 313598006538 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 313598006539 hypothetical protein; Provisional; Region: PRK00955 313598006540 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 313598006541 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 313598006542 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 313598006543 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 313598006544 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 313598006545 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 313598006546 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 313598006547 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 313598006548 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 313598006549 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 313598006550 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 313598006551 catalytic loop [active] 313598006552 iron binding site [ion binding]; other site 313598006553 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 313598006554 FAD binding pocket [chemical binding]; other site 313598006555 FAD binding motif [chemical binding]; other site 313598006556 phosphate binding motif [ion binding]; other site 313598006557 beta-alpha-beta structure motif; other site 313598006558 NAD binding pocket [chemical binding]; other site 313598006559 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 313598006560 catalytic motif [active] 313598006561 Catalytic residue [active] 313598006562 Yqey-like protein; Region: YqeY; pfam09424 313598006563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598006564 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 313598006565 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313598006566 active site 313598006567 catalytic site [active] 313598006568 substrate binding site [chemical binding]; other site 313598006569 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313598006570 GIY-YIG motif/motif A; other site 313598006571 active site 313598006572 catalytic site [active] 313598006573 putative DNA binding site [nucleotide binding]; other site 313598006574 metal binding site [ion binding]; metal-binding site 313598006575 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 313598006576 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 313598006577 substrate binding site [chemical binding]; other site 313598006578 hexamer interface [polypeptide binding]; other site 313598006579 metal binding site [ion binding]; metal-binding site 313598006580 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313598006581 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 313598006582 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313598006583 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313598006584 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 313598006585 DNA binding residues [nucleotide binding] 313598006586 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 313598006587 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 313598006588 Substrate-binding site [chemical binding]; other site 313598006589 Substrate specificity [chemical binding]; other site 313598006590 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313598006591 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 313598006592 active site 313598006593 phosphorylation site [posttranslational modification] 313598006594 intermolecular recognition site; other site 313598006595 dimerization interface [polypeptide binding]; other site 313598006596 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 313598006597 DNA binding site [nucleotide binding] 313598006598 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313598006599 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 313598006600 dimer interface [polypeptide binding]; other site 313598006601 phosphorylation site [posttranslational modification] 313598006602 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 313598006603 ATP binding site [chemical binding]; other site 313598006604 Mg2+ binding site [ion binding]; other site 313598006605 G-X-G motif; other site 313598006606 GLPGLI family protein; Region: GLPGLI; TIGR01200 313598006607 GLPGLI family protein; Region: GLPGLI; TIGR01200 313598006608 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313598006609 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 313598006610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598006611 Walker A/P-loop; other site 313598006612 ATP binding site [chemical binding]; other site 313598006613 Q-loop/lid; other site 313598006614 ABC transporter signature motif; other site 313598006615 Walker B; other site 313598006616 D-loop; other site 313598006617 H-loop/switch region; other site 313598006618 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 313598006619 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313598006620 active site 313598006621 catalytic site [active] 313598006622 substrate binding site [chemical binding]; other site 313598006623 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 313598006624 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 313598006625 active site 313598006626 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 313598006627 generic binding surface I; other site 313598006628 generic binding surface II; other site 313598006629 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 313598006630 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 313598006631 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 313598006632 RimM N-terminal domain; Region: RimM; pfam01782 313598006633 PRC-barrel domain; Region: PRC; pfam05239 313598006634 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 313598006635 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 313598006636 S-adenosylmethionine binding site [chemical binding]; other site 313598006637 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 313598006638 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 313598006639 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 313598006640 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 313598006641 active site 313598006642 substrate-binding site [chemical binding]; other site 313598006643 metal-binding site [ion binding] 313598006644 ATP binding site [chemical binding]; other site 313598006645 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313598006646 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 313598006647 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 313598006648 putative active site [active] 313598006649 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 313598006650 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 313598006651 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 313598006652 YtxH-like protein; Region: YtxH; pfam12732 313598006653 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313598006654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313598006655 Hemerythrin-like domain; Region: Hr-like; cd12108 313598006656 Fe binding site [ion binding]; other site 313598006657 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 313598006658 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 313598006659 active site 313598006660 DNA binding site [nucleotide binding] 313598006661 Int/Topo IB signature motif; other site 313598006662 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 313598006663 Uncharacterized conserved protein [Function unknown]; Region: COG4850 313598006664 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 313598006665 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 313598006666 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 313598006667 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 313598006668 dimer interface [polypeptide binding]; other site 313598006669 substrate binding site [chemical binding]; other site 313598006670 metal binding sites [ion binding]; metal-binding site 313598006671 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313598006672 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 313598006673 alpha subunit interface [polypeptide binding]; other site 313598006674 TPP binding site [chemical binding]; other site 313598006675 heterodimer interface [polypeptide binding]; other site 313598006676 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313598006677 Alginate lyase; Region: Alginate_lyase2; pfam08787 313598006678 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 313598006679 Ligand binding site [chemical binding]; other site 313598006680 Electron transfer flavoprotein domain; Region: ETF; pfam01012 313598006681 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 313598006682 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 313598006683 Ligand Binding Site [chemical binding]; other site 313598006684 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 313598006685 Bifunctional nuclease; Region: DNase-RNase; pfam02577 313598006686 UvrB/uvrC motif; Region: UVR; pfam02151 313598006687 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 313598006688 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 313598006689 Nucleoside recognition; Region: Gate; pfam07670 313598006690 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 313598006691 thymidylate synthase; Reviewed; Region: thyA; PRK01827 313598006692 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 313598006693 dimerization interface [polypeptide binding]; other site 313598006694 active site 313598006695 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 313598006696 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 313598006697 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 313598006698 folate binding site [chemical binding]; other site 313598006699 NADP+ binding site [chemical binding]; other site 313598006700 HCNGP-like protein; Region: HCNGP; pfam07818 313598006701 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 313598006702 active site 313598006703 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 313598006704 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 313598006705 metal binding site [ion binding]; metal-binding site 313598006706 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 313598006707 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 313598006708 homodimer interface [polypeptide binding]; other site 313598006709 substrate-cofactor binding pocket; other site 313598006710 catalytic residue [active] 313598006711 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 313598006712 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 313598006713 active site 313598006714 putative DNA-binding cleft [nucleotide binding]; other site 313598006715 dimer interface [polypeptide binding]; other site 313598006716 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 313598006717 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 313598006718 FeS/SAM binding site; other site 313598006719 HemN C-terminal domain; Region: HemN_C; pfam06969 313598006720 Putative cyclase; Region: Cyclase; pfam04199 313598006721 Putative cyclase; Region: Cyclase; cl00814 313598006722 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313598006723 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 313598006724 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 313598006725 oligomer interface [polypeptide binding]; other site 313598006726 metal binding site [ion binding]; metal-binding site 313598006727 metal binding site [ion binding]; metal-binding site 313598006728 Cl binding site [ion binding]; other site 313598006729 aspartate ring; other site 313598006730 basic sphincter; other site 313598006731 putative hydrophobic gate; other site 313598006732 periplasmic entrance; other site 313598006733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 313598006734 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 313598006735 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 313598006736 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598006737 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 313598006738 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 313598006739 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 313598006740 active site 313598006741 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 313598006742 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 313598006743 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 313598006744 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 313598006745 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 313598006746 PhnA protein; Region: PhnA; pfam03831 313598006747 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313598006748 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313598006749 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313598006750 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 313598006751 binding surface 313598006752 TPR motif; other site 313598006753 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 313598006754 binding surface 313598006755 TPR motif; other site 313598006756 GTPase CgtA; Reviewed; Region: obgE; PRK12299 313598006757 GTP1/OBG; Region: GTP1_OBG; pfam01018 313598006758 Obg GTPase; Region: Obg; cd01898 313598006759 G1 box; other site 313598006760 GTP/Mg2+ binding site [chemical binding]; other site 313598006761 Switch I region; other site 313598006762 G2 box; other site 313598006763 G3 box; other site 313598006764 Switch II region; other site 313598006765 G4 box; other site 313598006766 G5 box; other site 313598006767 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598006768 active site 313598006769 adenylate kinase; Reviewed; Region: adk; PRK00279 313598006770 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 313598006771 AMP-binding site [chemical binding]; other site 313598006772 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 313598006773 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 313598006774 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 313598006775 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 313598006776 Protein export membrane protein; Region: SecD_SecF; pfam02355 313598006777 malate dehydrogenase; Reviewed; Region: PRK06223 313598006778 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 313598006779 dimer interface [polypeptide binding]; other site 313598006780 NAD(P) binding site [chemical binding]; other site 313598006781 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313598006782 substrate binding site [chemical binding]; other site 313598006783 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 313598006784 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 313598006785 ATP binding site [chemical binding]; other site 313598006786 Mg2+ binding site [ion binding]; other site 313598006787 G-X-G motif; other site 313598006788 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 313598006789 anchoring element; other site 313598006790 dimer interface [polypeptide binding]; other site 313598006791 ATP binding site [chemical binding]; other site 313598006792 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 313598006793 active site 313598006794 putative metal-binding site [ion binding]; other site 313598006795 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313598006796 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 313598006797 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 313598006798 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 313598006799 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 313598006800 dimer interface [polypeptide binding]; other site 313598006801 anticodon binding site; other site 313598006802 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 313598006803 motif 1; other site 313598006804 dimer interface [polypeptide binding]; other site 313598006805 active site 313598006806 motif 2; other site 313598006807 GAD domain; Region: GAD; pfam02938 313598006808 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 313598006809 active site 313598006810 motif 3; other site 313598006811 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 313598006812 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 313598006813 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 313598006814 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 313598006815 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313598006816 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 313598006817 Glutamine amidotransferase class-I; Region: GATase; pfam00117 313598006818 glutamine binding [chemical binding]; other site 313598006819 catalytic triad [active] 313598006820 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 313598006821 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 313598006822 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 313598006823 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 313598006824 active site 313598006825 ribulose/triose binding site [chemical binding]; other site 313598006826 phosphate binding site [ion binding]; other site 313598006827 substrate (anthranilate) binding pocket [chemical binding]; other site 313598006828 product (indole) binding pocket [chemical binding]; other site 313598006829 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 313598006830 putative active site [active] 313598006831 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 313598006832 active site 313598006833 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 313598006834 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 313598006835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598006836 catalytic residue [active] 313598006837 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 313598006838 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 313598006839 substrate binding site [chemical binding]; other site 313598006840 active site 313598006841 catalytic residues [active] 313598006842 heterodimer interface [polypeptide binding]; other site 313598006843 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598006844 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 313598006845 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 313598006846 active site 313598006847 Predicted membrane protein [Function unknown]; Region: COG4270 313598006848 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313598006849 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 313598006850 PA/protease or protease-like domain interface [polypeptide binding]; other site 313598006851 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 313598006852 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598006853 metal binding site [ion binding]; metal-binding site 313598006854 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 313598006855 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 313598006856 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 313598006857 binding surface 313598006858 TPR motif; other site 313598006859 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 313598006860 binding surface 313598006861 TPR motif; other site 313598006862 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313598006863 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313598006864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598006865 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 313598006866 Walker A/P-loop; other site 313598006867 ATP binding site [chemical binding]; other site 313598006868 Q-loop/lid; other site 313598006869 ABC transporter signature motif; other site 313598006870 Walker B; other site 313598006871 D-loop; other site 313598006872 H-loop/switch region; other site 313598006873 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 313598006874 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313598006875 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 313598006876 active site 313598006877 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 313598006878 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 313598006879 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 313598006880 putative active site [active] 313598006881 putative metal binding site [ion binding]; other site 313598006882 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 313598006883 active site 313598006884 ligand binding site [chemical binding]; other site 313598006885 NAD(P) binding site [chemical binding]; other site 313598006886 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 313598006887 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313598006888 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313598006889 Transglutaminase/protease-like homologues; Region: TGc; smart00460 313598006890 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 313598006891 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 313598006892 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 313598006893 Peptidase family M28; Region: Peptidase_M28; pfam04389 313598006894 metal binding site [ion binding]; metal-binding site 313598006895 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313598006896 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313598006897 MG2 domain; Region: A2M_N; pfam01835 313598006898 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598006899 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313598006900 Alpha-2-macroglobulin family; Region: A2M; pfam00207 313598006901 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 313598006902 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 313598006903 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313598006904 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313598006905 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_HprK; cl00270 313598006906 active site 313598006907 metal-binding site [ion binding] 313598006908 nucleotide-binding site [chemical binding]; other site 313598006909 Lamin Tail Domain; Region: LTD; pfam00932 313598006910 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598006911 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 313598006912 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313598006913 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 313598006914 pentamer interface [polypeptide binding]; other site 313598006915 dodecaamer interface [polypeptide binding]; other site 313598006916 Cation transport protein; Region: TrkH; cl17365 313598006917 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 313598006918 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 313598006919 TrkA-N domain; Region: TrkA_N; pfam02254 313598006920 TrkA-C domain; Region: TrkA_C; pfam02080 313598006921 TrkA-N domain; Region: TrkA_N; pfam02254 313598006922 TrkA-C domain; Region: TrkA_C; pfam02080 313598006923 hypothetical protein; Reviewed; Region: PRK00024 313598006924 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 313598006925 MPN+ (JAMM) motif; other site 313598006926 Zinc-binding site [ion binding]; other site 313598006927 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 313598006928 putative active site [active] 313598006929 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 313598006930 Ligand Binding Site [chemical binding]; other site 313598006931 Molecular Tunnel; other site 313598006932 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313598006933 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 313598006934 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 313598006935 motif II; other site 313598006936 recombination factor protein RarA; Reviewed; Region: PRK13342 313598006937 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 313598006938 Walker A motif; other site 313598006939 ATP binding site [chemical binding]; other site 313598006940 Walker B motif; other site 313598006941 arginine finger; other site 313598006942 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 313598006943 Rhomboid family; Region: Rhomboid; cl11446 313598006944 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313598006945 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 313598006946 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313598006947 starch binding outer membrane protein SusD; Region: SusD; cd08977 313598006948 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313598006949 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598006950 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598006951 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 313598006952 Surface antigen; Region: Bac_surface_Ag; pfam01103 313598006953 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 313598006954 S17 interaction site [polypeptide binding]; other site 313598006955 S8 interaction site; other site 313598006956 16S rRNA interaction site [nucleotide binding]; other site 313598006957 streptomycin interaction site [chemical binding]; other site 313598006958 23S rRNA interaction site [nucleotide binding]; other site 313598006959 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 313598006960 30S ribosomal protein S7; Validated; Region: PRK05302 313598006961 elongation factor G; Reviewed; Region: PRK12739 313598006962 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 313598006963 G1 box; other site 313598006964 putative GEF interaction site [polypeptide binding]; other site 313598006965 GTP/Mg2+ binding site [chemical binding]; other site 313598006966 Switch I region; other site 313598006967 G2 box; other site 313598006968 G3 box; other site 313598006969 Switch II region; other site 313598006970 G4 box; other site 313598006971 G5 box; other site 313598006972 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 313598006973 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 313598006974 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 313598006975 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 313598006976 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 313598006977 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 313598006978 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 313598006979 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 313598006980 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 313598006981 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 313598006982 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 313598006983 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 313598006984 putative translocon binding site; other site 313598006985 protein-rRNA interface [nucleotide binding]; other site 313598006986 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 313598006987 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 313598006988 G-X-X-G motif; other site 313598006989 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 313598006990 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 313598006991 23S rRNA interface [nucleotide binding]; other site 313598006992 5S rRNA interface [nucleotide binding]; other site 313598006993 putative antibiotic binding site [chemical binding]; other site 313598006994 L25 interface [polypeptide binding]; other site 313598006995 L27 interface [polypeptide binding]; other site 313598006996 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 313598006997 23S rRNA interface [nucleotide binding]; other site 313598006998 putative translocon interaction site; other site 313598006999 signal recognition particle (SRP54) interaction site; other site 313598007000 L23 interface [polypeptide binding]; other site 313598007001 trigger factor interaction site; other site 313598007002 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 313598007003 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 313598007004 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 313598007005 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 313598007006 RNA binding site [nucleotide binding]; other site 313598007007 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 313598007008 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 313598007009 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 313598007010 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 313598007011 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 313598007012 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 313598007013 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313598007014 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313598007015 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 313598007016 23S rRNA interface [nucleotide binding]; other site 313598007017 5S rRNA interface [nucleotide binding]; other site 313598007018 L27 interface [polypeptide binding]; other site 313598007019 L5 interface [polypeptide binding]; other site 313598007020 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 313598007021 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 313598007022 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 313598007023 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 313598007024 23S rRNA binding site [nucleotide binding]; other site 313598007025 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 313598007026 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 313598007027 SecY translocase; Region: SecY; pfam00344 313598007028 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 313598007029 rRNA binding site [nucleotide binding]; other site 313598007030 predicted 30S ribosome binding site; other site 313598007031 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 313598007032 30S ribosomal protein S13; Region: bact_S13; TIGR03631 313598007033 30S ribosomal protein S11; Validated; Region: PRK05309 313598007034 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 313598007035 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 313598007036 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 313598007037 RNA binding surface [nucleotide binding]; other site 313598007038 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 313598007039 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 313598007040 alphaNTD homodimer interface [polypeptide binding]; other site 313598007041 alphaNTD - beta interaction site [polypeptide binding]; other site 313598007042 alphaNTD - beta' interaction site [polypeptide binding]; other site 313598007043 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 313598007044 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 313598007045 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 313598007046 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 313598007047 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 313598007048 catalytic site [active] 313598007049 subunit interface [polypeptide binding]; other site 313598007050 enolase; Provisional; Region: eno; PRK00077 313598007051 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 313598007052 dimer interface [polypeptide binding]; other site 313598007053 metal binding site [ion binding]; metal-binding site 313598007054 substrate binding pocket [chemical binding]; other site 313598007055 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 313598007056 dimer interface [polypeptide binding]; other site 313598007057 Citrate synthase; Region: Citrate_synt; pfam00285 313598007058 active site 313598007059 citrylCoA binding site [chemical binding]; other site 313598007060 NADH binding [chemical binding]; other site 313598007061 cationic pore residues; other site 313598007062 oxalacetate/citrate binding site [chemical binding]; other site 313598007063 coenzyme A binding site [chemical binding]; other site 313598007064 catalytic triad [active] 313598007065 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 313598007066 Amidinotransferase; Region: Amidinotransf; cl12043 313598007067 Fasciclin domain; Region: Fasciclin; pfam02469 313598007068 Fasciclin domain; Region: Fasciclin; pfam02469 313598007069 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 313598007070 Amidinotransferase; Region: Amidinotransf; pfam02274 313598007071 Protease prsW family; Region: PrsW-protease; pfam13367 313598007072 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598007073 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 313598007074 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 313598007075 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 313598007076 Permease; Region: Permease; pfam02405 313598007077 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 313598007078 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 313598007079 Walker A/P-loop; other site 313598007080 ATP binding site [chemical binding]; other site 313598007081 Q-loop/lid; other site 313598007082 ABC transporter signature motif; other site 313598007083 Walker B; other site 313598007084 D-loop; other site 313598007085 H-loop/switch region; other site 313598007086 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 313598007087 Domain of unknown function (DUF389); Region: DUF389; pfam04087 313598007088 Domain of unknown function (DUF955); Region: DUF955; cl01076 313598007089 SprT homologues; Region: SprT; cl01182 313598007090 short chain dehydrogenase; Provisional; Region: PRK06924 313598007091 classical (c) SDRs; Region: SDR_c; cd05233 313598007092 NAD(P) binding site [chemical binding]; other site 313598007093 active site 313598007094 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 313598007095 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313598007096 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 313598007097 active site 313598007098 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 313598007099 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 313598007100 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 313598007101 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 313598007102 active site 313598007103 FMN binding site [chemical binding]; other site 313598007104 substrate binding site [chemical binding]; other site 313598007105 3Fe-4S cluster binding site [ion binding]; other site 313598007106 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 313598007107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 313598007108 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598007109 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 313598007110 S-adenosylmethionine binding site [chemical binding]; other site 313598007111 glycine dehydrogenase; Provisional; Region: PRK05367 313598007112 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 313598007113 tetramer interface [polypeptide binding]; other site 313598007114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598007115 catalytic residue [active] 313598007116 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 313598007117 tetramer interface [polypeptide binding]; other site 313598007118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313598007119 catalytic residue [active] 313598007120 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313598007121 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313598007122 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 313598007123 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 313598007124 ligand binding site [chemical binding]; other site 313598007125 NAD binding site [chemical binding]; other site 313598007126 tetramer interface [polypeptide binding]; other site 313598007127 catalytic site [active] 313598007128 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 313598007129 L-serine binding site [chemical binding]; other site 313598007130 ACT domain interface; other site 313598007131 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 313598007132 NlpC/P60 family; Region: NLPC_P60; pfam00877 313598007133 kynureninase; Region: kynureninase; TIGR01814 313598007134 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 313598007135 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598007136 catalytic residue [active] 313598007137 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 313598007138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313598007139 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 313598007140 Cytochrome P450; Region: p450; cl12078 313598007141 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 313598007142 homotrimer interaction site [polypeptide binding]; other site 313598007143 putative active site [active] 313598007144 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313598007145 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 313598007146 NAD binding site [chemical binding]; other site 313598007147 catalytic residues [active] 313598007148 short chain dehydrogenase; Provisional; Region: PRK08339 313598007149 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 313598007150 putative NAD(P) binding site [chemical binding]; other site 313598007151 putative active site [active] 313598007152 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 313598007153 phosphodiesterase YaeI; Provisional; Region: PRK11340 313598007154 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 313598007155 putative active site [active] 313598007156 putative metal binding site [ion binding]; other site 313598007157 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 313598007158 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313598007159 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313598007160 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313598007161 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313598007162 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 313598007163 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 313598007164 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 313598007165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313598007166 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain; Region: MPP_Nbla03831; cd07396 313598007167 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313598007168 active site 313598007169 metal binding site [ion binding]; metal-binding site 313598007170 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 313598007171 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 313598007172 nucleotide binding site [chemical binding]; other site 313598007173 NEF interaction site [polypeptide binding]; other site 313598007174 SBD interface [polypeptide binding]; other site 313598007175 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 313598007176 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 313598007177 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 313598007178 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 313598007179 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 313598007180 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; pfam01036 313598007181 beta-carotene 15,15'-monooxygenase, Brp/Blh family; Region: blh_monoox; TIGR03753 313598007182 hypothetical protein; Validated; Region: PRK02101 313598007183 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 313598007184 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 313598007185 dimerization interface [polypeptide binding]; other site 313598007186 putative DNA binding site [nucleotide binding]; other site 313598007187 putative Zn2+ binding site [ion binding]; other site 313598007188 Low molecular weight phosphatase family; Region: LMWPc; cl00105 313598007189 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313598007190 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 313598007191 RNA binding surface [nucleotide binding]; other site 313598007192 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313598007193 active site 313598007194 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 313598007195 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 313598007196 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 313598007197 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 313598007198 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313598007199 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 313598007200 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 313598007201 active site 313598007202 (T/H)XGH motif; other site 313598007203 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 313598007204 putative active site [active] 313598007205 Zn binding site [ion binding]; other site 313598007206 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 313598007207 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 313598007208 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598007209 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313598007210 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313598007211 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313598007212 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 313598007213 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 313598007214 active site 313598007215 Ap6A binding site [chemical binding]; other site 313598007216 nudix motif; other site 313598007217 metal binding site [ion binding]; metal-binding site 313598007218 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598007219 active site 313598007220 IKI3 family; Region: IKI3; pfam04762 313598007221 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 313598007222 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313598007223 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 313598007224 FtsH Extracellular; Region: FtsH_ext; pfam06480 313598007225 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 313598007226 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 313598007227 Walker A motif; other site 313598007228 ATP binding site [chemical binding]; other site 313598007229 Walker B motif; other site 313598007230 arginine finger; other site 313598007231 Peptidase family M41; Region: Peptidase_M41; pfam01434 313598007232 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 313598007233 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 313598007234 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 313598007235 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 313598007236 acyl-CoA binding pocket [chemical binding]; other site 313598007237 CoA binding site [chemical binding]; other site 313598007238 YceI-like domain; Region: YceI; cl01001 313598007239 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598007240 TIGR01777 family protein; Region: yfcH 313598007241 NAD(P) binding site [chemical binding]; other site 313598007242 active site 313598007243 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313598007244 active site 313598007245 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313598007246 metal ion-dependent adhesion site (MIDAS); other site 313598007247 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 313598007248 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313598007249 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313598007250 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 313598007251 putative substrate binding site [chemical binding]; other site 313598007252 putative ATP binding site [chemical binding]; other site 313598007253 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313598007254 Peptidase family M23; Region: Peptidase_M23; pfam01551 313598007255 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 313598007256 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 313598007257 putative metal binding site [ion binding]; other site 313598007258 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313598007259 Interdomain contacts; other site 313598007260 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 313598007261 classical (c) SDRs; Region: SDR_c; cd05233 313598007262 NAD(P) binding site [chemical binding]; other site 313598007263 active site 313598007264 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 313598007265 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313598007266 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 313598007267 Predicted metalloprotease [General function prediction only]; Region: COG2321 313598007268 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 313598007269 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 313598007270 ATP binding site [chemical binding]; other site 313598007271 Mg++ binding site [ion binding]; other site 313598007272 motif III; other site 313598007273 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 313598007274 nucleotide binding region [chemical binding]; other site 313598007275 ATP-binding site [chemical binding]; other site 313598007276 Cupin domain; Region: Cupin_2; pfam07883 313598007277 heat shock protein 90; Provisional; Region: PRK05218 313598007278 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 313598007279 ATP binding site [chemical binding]; other site 313598007280 Mg2+ binding site [ion binding]; other site 313598007281 G-X-G motif; other site 313598007282 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313598007283 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 313598007284 dimer interface [polypeptide binding]; other site 313598007285 active site 313598007286 CoA binding pocket [chemical binding]; other site 313598007287 GLPGLI family protein; Region: GLPGLI; TIGR01200 313598007288 CoA binding domain; Region: CoA_binding_2; pfam13380 313598007289 PAS fold; Region: PAS_3; pfam08447 313598007290 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313598007291 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 313598007292 DNA binding residues [nucleotide binding] 313598007293 dimerization interface [polypeptide binding]; other site 313598007294 ribonuclease Z; Region: RNase_Z; TIGR02651 313598007295 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598007296 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 313598007297 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313598007298 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313598007299 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 313598007300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313598007301 active site 313598007302 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 313598007303 binding surface 313598007304 TPR motif; other site 313598007305 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 313598007306 binding surface 313598007307 TPR motif; other site 313598007308 TPR repeat; Region: TPR_11; pfam13414 313598007309 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 313598007310 binding surface 313598007311 TPR motif; other site 313598007312 TPR repeat; Region: TPR_11; pfam13414 313598007313 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 313598007314 TPR repeat; Region: TPR_11; pfam13414 313598007315 binding surface 313598007316 TPR motif; other site 313598007317 TPR repeat; Region: TPR_11; pfam13414 313598007318 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 313598007319 TPR repeat; Region: TPR_11; pfam13414 313598007320 binding surface 313598007321 TPR motif; other site 313598007322 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313598007323 TPR repeat; Region: TPR_11; pfam13414 313598007324 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 313598007325 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313598007326 putative NAD(P) binding site [chemical binding]; other site 313598007327 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 313598007328 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 313598007329 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313598007330 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313598007331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598007332 Coenzyme A binding pocket [chemical binding]; other site 313598007333 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 313598007334 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 313598007335 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 313598007336 PhoH-like protein; Region: PhoH; pfam02562 313598007337 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313598007338 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 313598007339 ATP binding site [chemical binding]; other site 313598007340 active site 313598007341 substrate binding site [chemical binding]; other site 313598007342 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313598007343 Fasciclin domain; Region: Fasciclin; pfam02469 313598007344 Integral membrane protein TerC family; Region: TerC; pfam03741 313598007345 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313598007346 acetyl-CoA synthetase; Provisional; Region: PRK00174 313598007347 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 313598007348 active site 313598007349 CoA binding site [chemical binding]; other site 313598007350 acyl-activating enzyme (AAE) consensus motif; other site 313598007351 AMP binding site [chemical binding]; other site 313598007352 acetate binding site [chemical binding]; other site 313598007353 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313598007354 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313598007355 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313598007356 Walker A/P-loop; other site 313598007357 ATP binding site [chemical binding]; other site 313598007358 Q-loop/lid; other site 313598007359 ABC transporter signature motif; other site 313598007360 Walker B; other site 313598007361 D-loop; other site 313598007362 H-loop/switch region; other site 313598007363 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_33; cd04692 313598007364 nudix motif; other site 313598007365 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313598007366 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 313598007367 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313598007368 catalytic residue [active] 313598007369 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 313598007370 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 313598007371 oligomer interface [polypeptide binding]; other site 313598007372 active site 313598007373 metal binding site [ion binding]; metal-binding site 313598007374 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313598007375 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 313598007376 Walker A/P-loop; other site 313598007377 ATP binding site [chemical binding]; other site 313598007378 Q-loop/lid; other site 313598007379 ABC transporter signature motif; other site 313598007380 Walker B; other site 313598007381 D-loop; other site 313598007382 H-loop/switch region; other site 313598007383 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313598007384 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313598007385 Zn binding site [ion binding]; other site 313598007386 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 313598007387 dihydrodipicolinate synthase; Region: dapA; TIGR00674 313598007388 dimer interface [polypeptide binding]; other site 313598007389 active site 313598007390 catalytic residue [active] 313598007391 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 313598007392 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; pfam01192 313598007393 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 313598007394 Flavoprotein; Region: Flavoprotein; pfam02441 313598007395 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 313598007396 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 313598007397 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313598007398 Walker A/P-loop; other site 313598007399 ATP binding site [chemical binding]; other site 313598007400 Q-loop/lid; other site 313598007401 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313598007402 ABC transporter signature motif; other site 313598007403 Walker B; other site 313598007404 D-loop; other site 313598007405 H-loop/switch region; other site 313598007406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313598007407 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 313598007408 NAD(P) binding site [chemical binding]; other site 313598007409 active site 313598007410 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313598007411 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 313598007412 active site 313598007413 Family description; Region: VCBS; pfam13517 313598007414 Family description; Region: VCBS; pfam13517 313598007415 Family description; Region: VCBS; pfam13517 313598007416 Family description; Region: VCBS; pfam13517 313598007417 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313598007418 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 313598007419 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 313598007420 active site 313598007421 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313598007422 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 313598007423 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 313598007424 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 313598007425 active site 313598007426 dimer interface [polypeptide binding]; other site 313598007427 catalytic nucleophile [active] 313598007428 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 313598007429 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 313598007430 putative substrate translocation pore; other site 313598007431 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 313598007432 membrane protein insertase; Provisional; Region: PRK01318 313598007433 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 313598007434 CTP synthetase; Validated; Region: pyrG; PRK05380 313598007435 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 313598007436 Catalytic site [active] 313598007437 active site 313598007438 UTP binding site [chemical binding]; other site 313598007439 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 313598007440 active site 313598007441 putative oxyanion hole; other site 313598007442 catalytic triad [active] 313598007443 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 313598007444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313598007445 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313598007446 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313598007447 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 313598007448 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 313598007449 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313598007450 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313598007451 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313598007452 YceI-like domain; Region: YceI; pfam04264 313598007453 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 313598007454 LytTr DNA-binding domain; Region: LytTR; smart00850 313598007455 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313598007456 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 313598007457 YceI-like domain; Region: YceI; pfam04264 313598007458 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 313598007459 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 313598007460 S-adenosylmethionine binding site [chemical binding]; other site 313598007461 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 313598007462 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 313598007463 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 313598007464 putative active site [active] 313598007465 catalytic site [active] 313598007466 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 313598007467 putative active site [active] 313598007468 catalytic site [active] 313598007469 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313598007470 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313598007471 Coenzyme A binding pocket [chemical binding]; other site 313598007472 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 313598007473 catalytic motif [active] 313598007474 Zn binding site [ion binding]; other site 313598007475 RibD C-terminal domain; Region: RibD_C; pfam01872 313598007476 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 313598007477 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 313598007478 EamA-like transporter family; Region: EamA; pfam00892 313598007479 Sugar transport protein; Region: Sugar_transport; pfam06800 313598007480 Uncharacterized conserved protein [Function unknown]; Region: COG1739 313598007481 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 313598007482 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 313598007483 active site 313598007484 DnaA N-terminal domain; Region: DnaA_N; pfam11638 313598007485 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 313598007486 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 313598007487 Walker A motif; other site 313598007488 ATP binding site [chemical binding]; other site 313598007489 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 313598007490 Walker B motif; other site 313598007491 arginine finger; other site 313598007492 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 313598007493 DnaA box-binding interface [nucleotide binding]; other site 313598007494 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 313598007495 Low molecular weight phosphatase family; Region: LMWPc; cd00115 313598007496 active site 313598007497 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 313598007498 putative SAM binding site [chemical binding]; other site 313598007499 homodimer interface [polypeptide binding]; other site 313598007500 YceG-like family; Region: YceG; pfam02618 313598007501 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 313598007502 dimerization interface [polypeptide binding]; other site 313598007503 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 313598007504 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 313598007505 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 313598007506 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313598007507 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313598007508 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 313598007509 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313598007510 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 313598007511 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 313598007512 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313598007513 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313598007514 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 313598007515 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 313598007516 nucleotide binding pocket [chemical binding]; other site 313598007517 K-X-D-G motif; other site 313598007518 catalytic site [active] 313598007519 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 313598007520 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 313598007521 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 313598007522 Dimer interface [polypeptide binding]; other site 313598007523 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127