-- dump date 20120504_152715 -- class Genbank::misc_feature -- table misc_feature_note -- id note 886377000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 886377000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 886377000003 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 886377000004 Walker A motif; other site 886377000005 ATP binding site [chemical binding]; other site 886377000006 Walker B motif; other site 886377000007 arginine finger; other site 886377000008 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 886377000009 DnaA box-binding interface [nucleotide binding]; other site 886377000010 Low molecular weight phosphatase family; Region: LMWPc; cd00115 886377000011 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 886377000012 active site 886377000013 Predicted methyltransferases [General function prediction only]; Region: COG0313 886377000014 YceG-like family; Region: YceG; pfam02618 886377000015 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 886377000016 dimerization interface [polypeptide binding]; other site 886377000017 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377000018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377000019 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 886377000020 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 886377000021 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 886377000022 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 886377000023 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 886377000024 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 886377000025 protein binding site [polypeptide binding]; other site 886377000026 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 886377000027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000028 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 886377000029 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 886377000030 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 886377000031 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 886377000032 GntP family permease; Region: GntP_permease; pfam02447 886377000033 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 886377000034 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 886377000035 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 886377000036 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 886377000037 oligomer interface [polypeptide binding]; other site 886377000038 active site 886377000039 metal binding site [ion binding]; metal-binding site 886377000040 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 886377000041 nudix motif; other site 886377000042 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 886377000043 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 ATP-dependent...; Region: HisRS-like_core; cd00773 886377000044 dimer interface [polypeptide binding]; other site 886377000045 motif 1; other site 886377000046 active site 886377000047 motif 2; other site 886377000048 motif 3; other site 886377000049 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 886377000050 anticodon binding site; other site 886377000051 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 886377000052 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 886377000053 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 886377000054 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 886377000055 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 886377000056 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 886377000057 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000058 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 886377000059 active site 886377000060 phosphorylation site [posttranslational modification] 886377000061 intermolecular recognition site; other site 886377000062 dimerization interface [polypeptide binding]; other site 886377000063 LytTr DNA-binding domain; Region: LytTR; cl04498 886377000064 primosome assembly protein PriA; Validated; Region: PRK05580 886377000065 primosome assembly protein PriA; Validated; Region: PRK05580 886377000066 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 886377000067 ATP binding site [chemical binding]; other site 886377000068 putative Mg++ binding site [ion binding]; other site 886377000069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377000070 C2 domain; Region: C2; cl14603 886377000071 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 886377000072 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 886377000073 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 886377000074 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 886377000075 dimerization interface [polypeptide binding]; other site 886377000076 active site 886377000077 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 886377000078 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 886377000079 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377000080 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 886377000081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000082 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 886377000083 L-serine binding site [chemical binding]; other site 886377000084 ACT domain interface; other site 886377000085 Phospholipid methyltransferase; Region: PEMT; cl00763 886377000086 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 886377000087 active site 886377000088 dimerization interface [polypeptide binding]; other site 886377000089 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 886377000090 DEAD-like helicases superfamily; Region: DEXDc; smart00487 886377000091 ATP binding site [chemical binding]; other site 886377000092 Mg++ binding site [ion binding]; other site 886377000093 motif III; other site 886377000094 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 886377000095 nucleotide binding region [chemical binding]; other site 886377000096 ATP-binding site [chemical binding]; other site 886377000097 DbpA RNA binding domain; Region: DbpA; pfam03880 886377000098 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377000099 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 886377000100 active site 886377000101 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 886377000102 active site 886377000103 catalytic site [active] 886377000104 catalytic site [active] 886377000105 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 886377000106 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000107 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 886377000108 putative hydrophobic ligand binding site [chemical binding]; other site 886377000109 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 886377000110 Glycosyl hydrolase family 43, includes mostly 1,4-beta-xylanases; Region: GH43_bXyl; cd09004 886377000111 putative substrate binding site [chemical binding]; other site 886377000112 active site 886377000113 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 886377000114 conserved cys residue [active] 886377000115 NAD-dependent deacetylase; Provisional; Region: PRK00481 886377000116 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 886377000117 NAD+ binding site [chemical binding]; other site 886377000118 substrate binding site [chemical binding]; other site 886377000119 Zn binding site [ion binding]; other site 886377000120 Haem-binding domain; Region: Haem_bd; pfam14376 886377000121 adenylosuccinate lyase; Provisional; Region: PRK09285 886377000122 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 886377000123 tetramer interface [polypeptide binding]; other site 886377000124 active site 886377000125 mechanosensitive channel MscS; Provisional; Region: PRK10334 886377000126 Conserved TM helix; Region: TM_helix; pfam05552 886377000127 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377000128 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 886377000129 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 886377000130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000131 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377000132 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 886377000133 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 886377000134 DNA binding residues [nucleotide binding] 886377000135 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377000136 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 886377000137 Catalytic dyad [active] 886377000138 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 886377000139 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 886377000140 substrate binding site [chemical binding]; other site 886377000141 oxyanion hole (OAH) forming residues; other site 886377000142 trimer interface [polypeptide binding]; other site 886377000143 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 886377000144 ligand binding site [chemical binding]; other site 886377000145 flexible hinge region; other site 886377000146 Uncharacterized conserved protein [Function unknown]; Region: COG2128 886377000147 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377000148 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 886377000149 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000150 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377000151 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 886377000152 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 886377000153 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 886377000154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000155 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377000156 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 886377000157 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377000158 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 886377000159 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 886377000160 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 catalyze...; Region: LT_GEWL; cd00254 886377000161 N-acetyl-D-glucosamine binding site [chemical binding]; other site 886377000162 catalytic residue [active] 886377000163 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377000164 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377000165 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377000166 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 886377000167 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 886377000168 FeS/SAM binding site; other site 886377000169 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 886377000170 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 886377000171 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 886377000172 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 886377000173 Amidohydrolase; Region: Amidohydro_4; pfam13147 886377000174 active site 886377000175 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377000176 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377000177 Domain of unknown function (DUF955); Region: DUF955; cl01076 886377000178 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 886377000179 active site 886377000180 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 886377000181 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 886377000182 active site 886377000183 metal binding site [ion binding]; metal-binding site 886377000184 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 886377000185 DoxX; Region: DoxX; cl00976 886377000186 DsrE/DsrF-like family; Region: DrsE; cl00672 886377000187 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 886377000188 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 886377000189 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000190 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 886377000191 active site 886377000192 phosphorylation site [posttranslational modification] 886377000193 intermolecular recognition site; other site 886377000194 dimerization interface [polypeptide binding]; other site 886377000195 LytTr DNA-binding domain; Region: LytTR; cl04498 886377000196 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 886377000197 Histidine kinase; Region: His_kinase; pfam06580 886377000198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377000199 hypothetical protein 886377000200 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 886377000201 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 886377000202 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 886377000203 putative trimer interface [polypeptide binding]; other site 886377000204 putative CoA binding site [chemical binding]; other site 886377000205 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 886377000206 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 886377000207 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 886377000208 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 886377000209 Ligand binding site; other site 886377000210 Putative Catalytic site; other site 886377000211 DXD motif; other site 886377000212 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 886377000213 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 886377000214 active site 886377000215 substrate binding site [chemical binding]; other site 886377000216 metal binding site [ion binding]; metal-binding site 886377000217 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 886377000218 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 886377000219 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 886377000220 Walker A/P-loop; other site 886377000221 ATP binding site [chemical binding]; other site 886377000222 Q-loop/lid; other site 886377000223 ABC transporter signature motif; other site 886377000224 Walker B; other site 886377000225 D-loop; other site 886377000226 H-loop/switch region; other site 886377000227 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377000228 16S rRNA methyltransferase B; Provisional; Region: PRK14902 886377000229 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 886377000230 S-adenosylmethionine binding site [chemical binding]; other site 886377000231 short chain dehydrogenase; Provisional; Region: PRK06180 886377000232 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 886377000233 NADP binding site [chemical binding]; other site 886377000234 active site 886377000235 steroid binding site; other site 886377000236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377000237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000238 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377000239 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377000240 putative metal binding site [ion binding]; other site 886377000241 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 886377000242 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 886377000243 dimerization interface [polypeptide binding]; other site 886377000244 ATP binding site [chemical binding]; other site 886377000245 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 886377000246 dimerization interface [polypeptide binding]; other site 886377000247 ATP binding site [chemical binding]; other site 886377000248 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 886377000249 putative active site [active] 886377000250 catalytic triad [active] 886377000251 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 886377000252 AMP-binding enzyme; Region: AMP-binding; cl15778 886377000253 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377000254 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377000255 Transcriptional regulators [Transcription]; Region: MarR; COG1846 886377000256 Helix-turn-helix domains; Region: HTH; cl00088 886377000257 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 886377000258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000259 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 886377000260 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 886377000261 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 886377000262 substrate binding site [chemical binding]; other site 886377000263 oxyanion hole (OAH) forming residues; other site 886377000264 trimer interface [polypeptide binding]; other site 886377000265 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377000266 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 886377000267 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 886377000268 dimer interface [polypeptide binding]; other site 886377000269 active site 886377000270 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377000271 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377000272 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377000273 active site 886377000274 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 886377000275 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 886377000276 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 886377000277 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 886377000278 active site 886377000279 homotetramer interface [polypeptide binding]; other site 886377000280 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377000281 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 886377000282 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 886377000283 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 886377000284 putative metal binding site [ion binding]; other site 886377000285 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; cl00065 886377000286 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 886377000287 Zn binding site [ion binding]; other site 886377000288 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 886377000289 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377000290 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377000291 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377000292 Cytochrome c; Region: Cytochrom_C; cl11414 886377000293 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 886377000294 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 886377000295 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 886377000296 putative substrate translocation pore; other site 886377000297 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000298 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 886377000299 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 886377000300 active site 886377000301 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 886377000302 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 886377000303 E-class dimer interface [polypeptide binding]; other site 886377000304 P-class dimer interface [polypeptide binding]; other site 886377000305 active site 886377000306 Cu2+ binding site [ion binding]; other site 886377000307 Zn2+ binding site [ion binding]; other site 886377000308 YceI-like domain; Region: YceI; cl01001 886377000309 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 886377000310 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000311 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 886377000312 DNA binding residues [nucleotide binding] 886377000313 Anti-sigma-K factor rskA; Region: RskA; pfam10099 886377000314 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 886377000315 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 886377000316 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377000317 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377000318 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 886377000319 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 886377000320 Rhoptry-associated protein 1 (RAP-1); Region: RAP-1; pfam03085 886377000321 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377000322 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 886377000323 active site 886377000324 phosphorylation site [posttranslational modification] 886377000325 intermolecular recognition site; other site 886377000326 dimerization interface [polypeptide binding]; other site 886377000327 LytTr DNA-binding domain; Region: LytTR; cl04498 886377000328 2TM domain; Region: 2TM; pfam13239 886377000329 2TM domain; Region: 2TM; pfam13239 886377000330 2TM domain; Region: 2TM; pfam13239 886377000331 2TM domain; Region: 2TM; pfam13239 886377000333 Histidine kinase; Region: His_kinase; pfam06580 886377000334 2TM domain; Region: 2TM; pfam13239 886377000335 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 886377000336 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377000337 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 886377000338 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 886377000339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377000340 Coenzyme A binding pocket [chemical binding]; other site 886377000341 DoxX; Region: DoxX; cl00976 886377000342 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377000343 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377000344 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; cl00284 886377000345 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 886377000346 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 886377000347 Helix-turn-helix domains; Region: HTH; cl00088 886377000348 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 886377000349 dimerization interface [polypeptide binding]; other site 886377000350 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377000351 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 886377000352 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 886377000353 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 886377000354 dimer interface [polypeptide binding]; other site 886377000355 ADP-ribose binding site [chemical binding]; other site 886377000356 active site 886377000357 nudix motif; other site 886377000358 metal binding site [ion binding]; metal-binding site 886377000359 Uncharacterized conserved protein [Function unknown]; Region: COG5476 886377000360 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 886377000361 MlrC C-terminus; Region: MlrC_C; pfam07171 886377000362 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 886377000363 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377000364 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 886377000365 Tic20-like protein; Region: Tic20; pfam09685 886377000366 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 886377000367 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 886377000368 Helix-turn-helix domains; Region: HTH; cl00088 886377000369 PspC domain; Region: PspC; cl00864 886377000370 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377000371 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377000372 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377000373 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 886377000374 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 886377000375 active site 886377000376 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 886377000377 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 886377000378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377000379 catalytic residue [active] 886377000380 NlpC/P60 family; Region: NLPC_P60; cl11438 886377000381 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377000382 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377000383 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377000384 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377000385 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377000386 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; cl00284 886377000387 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 886377000388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377000389 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 886377000390 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 886377000391 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377000392 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 886377000393 Deoxyhypusine synthase; Region: DS; cl00826 886377000394 Arginase family; Region: Arginase; cl00306 886377000395 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 886377000396 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 886377000397 dimer interface [polypeptide binding]; other site 886377000398 active site 886377000399 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377000400 catalytic residues [active] 886377000401 substrate binding site [chemical binding]; other site 886377000402 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 886377000403 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000404 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 886377000405 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377000407 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 886377000408 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 886377000409 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 886377000410 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 886377000411 putative catalytic site [active] 886377000412 putative metal binding site [ion binding]; other site 886377000413 putative phosphate binding site [ion binding]; other site 886377000414 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 886377000415 active site 886377000416 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 886377000417 active site 886377000418 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 886377000419 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 886377000420 Predicted transcriptional regulator [Transcription]; Region: COG3888 886377000421 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 886377000422 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377000423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000424 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 886377000425 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 886377000426 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 886377000427 DNA binding site [nucleotide binding] 886377000428 active site 886377000429 Predicted transcriptional regulator [Transcription]; Region: COG2378 886377000430 Helix-turn-helix domains; Region: HTH; cl00088 886377000431 WYL domain; Region: WYL; cl14852 886377000432 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377000433 DinB superfamily; Region: DinB_2; pfam12867 886377000434 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377000435 VPS10 domain; Region: VPS10; smart00602 886377000436 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 886377000437 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 886377000438 conserved cys residue [active] 886377000439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377000441 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; cl00161 886377000442 DinB superfamily; Region: DinB_2; pfam12867 886377000443 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377000444 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000445 active site 886377000446 metal binding site [ion binding]; metal-binding site 886377000447 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 886377000448 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000449 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 886377000450 dimer interface [polypeptide binding]; other site 886377000451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000452 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377000453 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377000454 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 886377000455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000456 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377000457 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 886377000458 DNA binding residues [nucleotide binding] 886377000459 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 886377000460 putative metal binding site [ion binding]; other site 886377000461 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 886377000462 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377000463 kelch-like protein; Provisional; Region: PHA03098 886377000464 Kelch motif; Region: Kelch_1; cl02701 886377000465 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 886377000466 Histidine kinase; Region: His_kinase; pfam06580 886377000467 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 886377000468 Response regulator receiver domain; Region: Response_reg; pfam00072 886377000469 active site 886377000470 phosphorylation site [posttranslational modification] 886377000471 intermolecular recognition site; other site 886377000472 dimerization interface [polypeptide binding]; other site 886377000473 LytTr DNA-binding domain; Region: LytTR; cl04498 886377000474 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377000475 Helix-turn-helix domains; Region: HTH; cl00088 886377000476 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377000477 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377000478 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377000479 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377000480 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 886377000481 Walker A/P-loop; other site 886377000482 ATP binding site [chemical binding]; other site 886377000483 Q-loop/lid; other site 886377000484 ABC transporter signature motif; other site 886377000485 Walker B; other site 886377000486 D-loop; other site 886377000487 H-loop/switch region; other site 886377000488 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 886377000489 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 886377000490 Walker A/P-loop; other site 886377000491 ATP binding site [chemical binding]; other site 886377000492 Q-loop/lid; other site 886377000493 ABC transporter signature motif; other site 886377000494 Walker B; other site 886377000495 D-loop; other site 886377000496 H-loop/switch region; other site 886377000497 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 886377000498 ABC-2 type transporter; Region: ABC2_membrane; cl11417 886377000499 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 886377000500 ABC-2 type transporter; Region: ABC2_membrane; cl11417 886377000501 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 886377000502 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 886377000503 ATP cone domain; Region: ATP-cone; pfam03477 886377000504 Restriction endonuclease; Region: Mrr_cat; cl00516 886377000505 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377000506 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377000507 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377000508 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377000509 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 886377000510 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377000511 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 886377000512 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 886377000513 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 886377000514 NAD(P) binding site [chemical binding]; other site 886377000515 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377000516 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 886377000517 active site 886377000518 phosphorylation site [posttranslational modification] 886377000519 intermolecular recognition site; other site 886377000520 dimerization interface [polypeptide binding]; other site 886377000521 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 886377000522 Walker A motif; other site 886377000523 ATP binding site [chemical binding]; other site 886377000524 Walker B motif; other site 886377000525 arginine finger; other site 886377000526 Helix-turn-helix domains; Region: HTH; cl00088 886377000527 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 886377000528 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 886377000529 dimer interface [polypeptide binding]; other site 886377000530 phosphorylation site [posttranslational modification] 886377000531 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 886377000532 ATP binding site [chemical binding]; other site 886377000533 Mg2+ binding site [ion binding]; other site 886377000534 G-X-G motif; other site 886377000535 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377000536 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 886377000537 non-specific DNA binding site [nucleotide binding]; other site 886377000538 salt bridge; other site 886377000539 sequence-specific DNA binding site [nucleotide binding]; other site 886377000540 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 886377000541 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; cl16911 886377000542 cofactor binding site; other site 886377000543 DNA binding site [nucleotide binding] 886377000544 substrate interaction site [chemical binding]; other site 886377000545 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; cl16911 886377000546 DNA binding site [nucleotide binding] 886377000547 substrate interaction site [chemical binding]; other site 886377000548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377000549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377000550 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 886377000551 ATP binding site [chemical binding]; other site 886377000552 Mg2+ binding site [ion binding]; other site 886377000553 G-X-G motif; other site 886377000554 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; cl09944 886377000555 phosphorylation site [posttranslational modification] 886377000556 intermolecular recognition site; other site 886377000557 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377000558 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000559 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377000560 DNA binding residues [nucleotide binding] 886377000561 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 886377000562 non-specific DNA binding site [nucleotide binding]; other site 886377000563 salt bridge; other site 886377000564 sequence-specific DNA binding site [nucleotide binding]; other site 886377000565 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 886377000566 active site 886377000567 DNA binding site [nucleotide binding] 886377000568 Int/Topo IB signature motif; other site 886377000569 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377000570 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 886377000571 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 886377000572 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 886377000573 putative active site [active] 886377000574 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 886377000575 Helix-turn-helix domains; Region: HTH; cl00088 886377000576 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 886377000577 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 886377000578 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 886377000579 active site 886377000580 trimer interface [polypeptide binding]; other site 886377000581 allosteric site; other site 886377000582 active site lid [active] 886377000583 hexamer (dimer of trimers) interface [polypeptide binding]; other site 886377000584 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 886377000585 muropeptide transporter; Validated; Region: ampG; PRK11010 886377000586 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377000587 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 886377000588 S-adenosylmethionine binding site [chemical binding]; other site 886377000589 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 886377000590 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 886377000591 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 886377000592 putative substrate translocation pore; other site 886377000593 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377000594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000595 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 886377000596 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377000597 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377000598 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 886377000599 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377000600 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377000601 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 886377000602 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 886377000603 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 886377000604 carboxyltransferase (CT) interaction site; other site 886377000605 biotinylation site [posttranslational modification]; other site 886377000606 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 886377000607 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 886377000608 ATP-binding site [chemical binding]; other site 886377000609 Sugar specificity; other site 886377000610 Pyrimidine base specificity; other site 886377000611 Septum formation initiator; Region: DivIC; cl11433 886377000612 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 886377000613 heterodimer interface [polypeptide binding]; other site 886377000614 substrate interaction site [chemical binding]; other site 886377000615 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 886377000616 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 886377000617 active site 886377000618 substrate binding site [chemical binding]; other site 886377000619 coenzyme B12 binding site [chemical binding]; other site 886377000620 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 886377000621 B12 binding site [chemical binding]; other site 886377000622 cobalt ligand [ion binding]; other site 886377000623 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 886377000624 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 886377000625 P-loop; other site 886377000626 Magnesium ion binding site [ion binding]; other site 886377000627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377000628 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 886377000629 Magnesium ion binding site [ion binding]; other site 886377000630 ParB-like partition proteins; Region: parB_part; TIGR00180 886377000631 ParB-like nuclease domain; Region: ParBc; cl02129 886377000632 dihydrodipicolinate reductase; Provisional; Region: PRK00048 886377000633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000634 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 886377000635 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 886377000636 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 886377000637 Catalytic site [active] 886377000638 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 886377000639 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 886377000640 WbqC-like protein family; Region: WbqC; pfam08889 886377000641 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 886377000642 putative catalytic site [active] 886377000643 putative metal binding site [ion binding]; other site 886377000644 putative phosphate binding site [ion binding]; other site 886377000645 Rhomboid family; Region: Rhomboid; cl11446 886377000646 Rhomboid family; Region: Rhomboid; cl11446 886377000647 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 886377000648 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 886377000649 ATP binding site [chemical binding]; other site 886377000650 Mg2+ binding site [ion binding]; other site 886377000651 G-X-G motif; other site 886377000652 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 886377000653 ATP binding site [chemical binding]; other site 886377000654 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 886377000655 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 886377000656 homopentamer interface [polypeptide binding]; other site 886377000657 active site 886377000658 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377000659 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 886377000660 binding surface 886377000661 TPR motif; other site 886377000662 recombination protein F; Reviewed; Region: recF; PRK00064 886377000663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377000664 Walker A/P-loop; other site 886377000665 ATP binding site [chemical binding]; other site 886377000666 Q-loop/lid; other site 886377000667 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377000668 ABC transporter signature motif; other site 886377000669 Walker B; other site 886377000670 D-loop; other site 886377000671 H-loop/switch region; other site 886377000672 Protein of unknown function (DUF721); Region: DUF721; cl02324 886377000673 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 886377000674 active site 886377000675 multimer interface [polypeptide binding]; other site 886377000676 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 886377000677 putative active site [active] 886377000678 putative metal binding site [ion binding]; other site 886377000679 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 886377000680 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 886377000681 DHH family; Region: DHH; pfam01368 886377000682 DHHA1 domain; Region: DHHA1; pfam02272 886377000683 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 886377000684 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 886377000685 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 886377000686 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 886377000687 active site 886377000688 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 886377000689 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 886377000690 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000691 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 886377000692 active site 886377000693 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000694 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 886377000695 active site 886377000696 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377000697 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 886377000698 active site 886377000699 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 886377000700 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 886377000701 Peptidase family M48; Region: Peptidase_M48; cl12018 886377000702 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 886377000703 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 886377000704 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 886377000705 synthetase active site [active] 886377000706 NTP binding site [chemical binding]; other site 886377000707 metal binding site [ion binding]; metal-binding site 886377000708 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 886377000709 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 886377000710 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 886377000711 metal binding site 2 [ion binding]; metal-binding site 886377000712 putative DNA binding helix; other site 886377000713 metal binding site 1 [ion binding]; metal-binding site 886377000714 dimer interface [polypeptide binding]; other site 886377000715 structural Zn2+ binding site [ion binding]; other site 886377000716 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 886377000717 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 886377000718 GDP-binding site [chemical binding]; other site 886377000719 ACT binding site; other site 886377000720 IMP binding site; other site 886377000721 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377000722 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377000723 dimerization interface [polypeptide binding]; other site 886377000724 DPS ferroxidase diiron center [ion binding]; other site 886377000725 ion pore; other site 886377000726 OstA-like protein; Region: OstA_2; pfam13100 886377000727 OstA-like protein; Region: OstA; cl00844 886377000728 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 886377000729 acetylornithine aminotransferase; Provisional; Region: PRK02627 886377000730 inhibitor-cofactor binding pocket; inhibition site 886377000731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377000732 catalytic residue [active] 886377000733 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 886377000734 binding surface 886377000735 TPR motif; other site 886377000736 TPR repeat; Region: TPR_11; pfam13414 886377000737 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 886377000738 binding surface 886377000739 TPR motif; other site 886377000740 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 886377000741 binding surface 886377000742 TPR motif; other site 886377000743 TPR repeat; Region: TPR_11; pfam13414 886377000744 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 886377000745 binding surface 886377000746 TPR repeat; Region: TPR_11; pfam13414 886377000747 TPR motif; other site 886377000748 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 886377000749 binding surface 886377000750 TPR motif; other site 886377000751 TPR repeat; Region: TPR_11; pfam13414 886377000752 TPR repeat; Region: TPR_11; pfam13414 886377000753 Domain of unknown function (DUF368); Region: DUF368; cl00893 886377000754 Domain of unknown function (DUF368); Region: DUF368; cl00893 886377000755 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 886377000756 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 886377000757 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 886377000758 shikimate binding site; other site 886377000759 NAD(P) binding site [chemical binding]; other site 886377000760 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000761 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000762 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000763 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000764 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 886377000765 FOG: CBS domain [General function prediction only]; Region: COG0517 886377000766 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 886377000767 phosphodiesterase; Provisional; Region: PRK12704 886377000768 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 886377000769 Cell division protein ZapA; Region: ZapA; cl01146 886377000770 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377000771 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 886377000772 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 886377000773 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377000774 catalytic residue [active] 886377000775 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 886377000776 Smr domain; Region: Smr; cl02619 886377000777 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 886377000778 Interferon-induced transmembrane protein; Region: CD225; pfam04505 886377000779 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 886377000780 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 886377000781 ATP binding site [chemical binding]; other site 886377000782 putative Mg++ binding site [ion binding]; other site 886377000783 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 886377000784 nucleotide binding region [chemical binding]; other site 886377000785 ATP-binding site [chemical binding]; other site 886377000786 RQC domain; Region: RQC; cl09632 886377000787 HRDC domain; Region: HRDC; cl02578 886377000788 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 886377000789 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 886377000790 putative active site [active] 886377000791 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 886377000792 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 886377000793 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377000794 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 886377000795 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 886377000796 Walker A/P-loop; other site 886377000797 ATP binding site [chemical binding]; other site 886377000798 Q-loop/lid; other site 886377000799 ABC transporter signature motif; other site 886377000800 Walker B; other site 886377000801 D-loop; other site 886377000802 H-loop/switch region; other site 886377000803 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 886377000804 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 886377000805 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 886377000806 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377000807 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377000808 ABC transporter; Region: ABC_tran_2; pfam12848 886377000809 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377000810 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 886377000811 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 886377000812 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 886377000813 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 886377000814 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 886377000815 nucleotide binding region [chemical binding]; other site 886377000816 ATP-binding site [chemical binding]; other site 886377000817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377000818 Histidine kinase; Region: HisKA_2; cl06527 886377000819 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 886377000820 ATP binding site [chemical binding]; other site 886377000821 Mg2+ binding site [ion binding]; other site 886377000822 G-X-G motif; other site 886377000823 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 886377000824 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 886377000825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377000826 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 886377000827 DNA binding residues [nucleotide binding] 886377000828 OsmC-like protein; Region: OsmC; cl00767 886377000829 membrane ATPase/protein kinase; Provisional; Region: PRK09435 886377000830 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 886377000831 Walker A; other site 886377000832 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 886377000833 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 886377000834 Ligand binding site; other site 886377000835 Putative Catalytic site; other site 886377000836 DXD motif; other site 886377000837 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 886377000838 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377000839 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 886377000840 PAP2_like_4 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_4; cd03395 886377000841 active site 886377000842 multidrug efflux protein; Reviewed; Region: PRK01766 886377000843 MatE; Region: MatE; cl10513 886377000844 MatE; Region: MatE; cl10513 886377000845 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 886377000846 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 886377000847 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 886377000848 Members of the SGNH-hydrolase superfamily, 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_like_7; cd04502 886377000849 active site 886377000850 catalytic triad [active] 886377000851 oxyanion hole [active] 886377000852 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 886377000853 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 886377000854 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 886377000855 active site 886377000856 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 886377000857 active site 886377000858 catalytic residues [active] 886377000859 metal binding site [ion binding]; metal-binding site 886377000860 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 886377000861 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 886377000862 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 886377000863 trimer interface [polypeptide binding]; other site 886377000864 active site 886377000865 substrate binding site [chemical binding]; other site 886377000866 CoA binding site [chemical binding]; other site 886377000867 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 886377000868 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 886377000869 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 886377000870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000871 UDP-galactopyranose mutase; Region: GLF; pfam03275 886377000872 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 886377000873 putative metal binding site; other site 886377000874 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 886377000875 Substrate binding site; other site 886377000876 metal-binding site 886377000877 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 886377000878 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 886377000879 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 886377000880 active site 886377000881 NTP binding site [chemical binding]; other site 886377000882 metal binding triad [ion binding]; metal-binding site 886377000883 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 886377000884 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 886377000885 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 886377000886 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 886377000887 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 886377000888 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 886377000889 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 886377000890 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377000891 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 886377000892 Walker A/P-loop; other site 886377000893 ATP binding site [chemical binding]; other site 886377000894 Q-loop/lid; other site 886377000895 ABC transporter signature motif; other site 886377000896 Walker B; other site 886377000897 D-loop; other site 886377000898 H-loop/switch region; other site 886377000899 ABC-2 type transporter; Region: ABC2_membrane; cl11417 886377000900 excinuclease ABC subunit B; Provisional; Region: PRK05298 886377000901 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 886377000902 ATP binding site [chemical binding]; other site 886377000903 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 886377000904 nucleotide binding region [chemical binding]; other site 886377000905 ATP-binding site [chemical binding]; other site 886377000906 Ultra-violet resistance protein B; Region: UvrB; pfam12344 886377000907 UvrB/uvrC motif; Region: UVR; pfam02151 886377000908 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 886377000909 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377000910 putative dimer interface [polypeptide binding]; other site 886377000911 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 886377000912 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377000913 CoA-ligase; Region: Ligase_CoA; cl02894 886377000914 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 886377000915 diaminopimelate decarboxylase; Region: lysA; TIGR01048 886377000916 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 886377000917 active site 886377000918 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377000919 substrate binding site [chemical binding]; other site 886377000920 catalytic residues [active] 886377000921 dimer interface [polypeptide binding]; other site 886377000922 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 886377000923 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377000924 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 886377000925 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; cl09108 886377000926 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 key...; Region: CBS_pair_IMPDH; cd04601 886377000927 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 the guanine...; Region: IMPDH; cd00381 886377000928 active site 886377000929 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 886377000930 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 886377000931 N-terminal plug; other site 886377000932 ligand-binding site [chemical binding]; other site 886377000933 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 886377000934 active site 886377000935 catalytic residues [active] 886377000936 metal binding site [ion binding]; metal-binding site 886377000937 LysE type translocator; Region: LysE; cl00565 886377000938 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 886377000939 quinone interaction residues [chemical binding]; other site 886377000940 active site 886377000941 catalytic residues [active] 886377000942 FMN binding site [chemical binding]; other site 886377000943 substrate binding site [chemical binding]; other site 886377000944 peptidase T; Region: peptidase-T; TIGR01882 886377000945 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 886377000946 metal binding site [ion binding]; metal-binding site 886377000947 dimer interface [polypeptide binding]; other site 886377000948 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377000949 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377000951 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377000952 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377000953 active site 886377000954 metal binding site [ion binding]; metal-binding site 886377000956 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377000957 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 886377000958 PA/protease or protease-like domain interface [polypeptide binding]; other site 886377000959 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 886377000960 metal binding site [ion binding]; metal-binding site 886377000961 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 886377000962 Response regulator receiver domain; Region: Response_reg; pfam00072 886377000963 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 886377000964 active site 886377000965 phosphorylation site [posttranslational modification] 886377000966 intermolecular recognition site; other site 886377000967 dimerization interface [polypeptide binding]; other site 886377000968 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 886377000969 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 886377000970 Walker A motif; other site 886377000971 ATP binding site [chemical binding]; other site 886377000972 Walker B motif; other site 886377000973 arginine finger; other site 886377000974 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377000975 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 886377000976 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 886377000977 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 886377000978 Walker A/P-loop; other site 886377000979 ATP binding site [chemical binding]; other site 886377000980 Q-loop/lid; other site 886377000981 ABC transporter signature motif; other site 886377000982 Walker B; other site 886377000983 D-loop; other site 886377000984 H-loop/switch region; other site 886377000985 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 886377000986 chaperone protein DnaJ; Provisional; Region: PRK14289 886377000987 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 886377000988 HSP70 interaction site [polypeptide binding]; other site 886377000989 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 886377000990 Zn binding sites [ion binding]; other site 886377000991 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 886377000992 dimer interface [polypeptide binding]; other site 886377000993 heat shock protein GrpE; Provisional; Region: PRK14140 886377000994 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 886377000995 dimer interface [polypeptide binding]; other site 886377000996 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 886377000997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377000998 TIGR01777 family protein; Region: yfcH 886377000999 NAD(P) binding site [chemical binding]; other site 886377001000 active site 886377001001 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; cl16911 886377001002 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 886377001003 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 886377001004 homodimer interface [polypeptide binding]; other site 886377001005 substrate-cofactor binding pocket; other site 886377001006 catalytic residue [active] 886377001007 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 886377001008 CrcB-like protein; Region: CRCB; cl09114 886377001009 Nitrogen regulatory protein P-II; Region: P-II; cl00412 886377001010 Nitrogen regulatory protein P-II; Region: P-II; smart00938 886377001011 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 886377001012 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 886377001013 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 886377001014 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 886377001015 Helix-turn-helix domains; Region: HTH; cl00088 886377001016 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 886377001017 B12 binding site [chemical binding]; other site 886377001018 cobalt ligand [ion binding]; other site 886377001019 LAO/AO transport system ATPase; Region: lao; TIGR00750 886377001020 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 886377001021 Walker A; other site 886377001022 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 886377001023 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 886377001024 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 886377001025 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 886377001026 putative active site [active] 886377001027 putative substrate binding site [chemical binding]; other site 886377001028 putative cosubstrate binding site; other site 886377001029 catalytic site [active] 886377001030 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 886377001031 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377001032 putative substrate translocation pore; other site 886377001033 maltose phosphorylase; Provisional; Region: PRK13807 886377001034 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 886377001035 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 886377001036 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 886377001037 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 886377001038 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 contains two...; Region: OMP_decarboxylase_like; cd04725 886377001039 active site 886377001040 dimer interface [polypeptide binding]; other site 886377001041 peptide chain release factor 1; Validated; Region: prfA; PRK00591 886377001042 RF-1 domain; Region: RF-1; cl02875 886377001043 RF-1 domain; Region: RF-1; cl02875 886377001044 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 886377001045 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 886377001046 ApbE family; Region: ApbE; cl00643 886377001047 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 886377001048 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377001049 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 886377001050 iron-sulfur cluster [ion binding]; other site 886377001051 [2Fe-2S] cluster binding site [ion binding]; other site 886377001052 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 886377001053 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 886377001054 dimerization interface [polypeptide binding]; other site 886377001055 ATP binding site [chemical binding]; other site 886377001056 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 886377001057 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 886377001058 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 886377001059 glutamine synthetase; Region: PLN02284 886377001060 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 886377001061 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 886377001062 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 886377001063 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 886377001064 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 886377001065 Helix-turn-helix domains; Region: HTH; cl00088 886377001066 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 886377001067 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001068 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377001069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001070 active site 886377001071 Sulfatase; Region: Sulfatase; cl10460 886377001072 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 886377001073 gliding motility-associated lipoprotein GldK; Region: GldK_short; TIGR03529 886377001074 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 886377001075 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 886377001076 Cupin domain; Region: Cupin_2; cl09118 886377001077 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001078 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001079 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 886377001080 N-terminal plug; other site 886377001081 ligand-binding site [chemical binding]; other site 886377001082 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 886377001083 Ligand Binding Site [chemical binding]; other site 886377001084 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 886377001085 Ligand Binding Site [chemical binding]; other site 886377001086 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 886377001087 Ligand Binding Site [chemical binding]; other site 886377001088 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 886377001089 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377001090 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377001091 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377001092 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377001093 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377001094 FtsX-like permease family; Region: FtsX; cl15850 886377001095 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377001096 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377001097 Walker A/P-loop; other site 886377001098 ATP binding site [chemical binding]; other site 886377001099 Q-loop/lid; other site 886377001100 ABC transporter signature motif; other site 886377001101 Walker B; other site 886377001102 D-loop; other site 886377001103 H-loop/switch region; other site 886377001104 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 886377001105 Ligand Binding Site [chemical binding]; other site 886377001106 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377001107 putative dimer interface [polypeptide binding]; other site 886377001108 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 886377001109 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 886377001110 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377001111 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 886377001112 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377001113 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377001114 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 886377001115 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 886377001116 PAS domain; Region: PAS_9; pfam13426 886377001117 putative active site [active] 886377001118 heme pocket [chemical binding]; other site 886377001119 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 886377001120 PAS domain; Region: PAS_9; pfam13426 886377001121 putative active site [active] 886377001122 heme pocket [chemical binding]; other site 886377001123 GAF domain; Region: GAF; cl15785 886377001124 GAF domain; Region: GAF_2; pfam13185 886377001125 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 886377001126 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 886377001127 dimer interface [polypeptide binding]; other site 886377001128 phosphorylation site [posttranslational modification] 886377001129 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 886377001130 ATP binding site [chemical binding]; other site 886377001131 Mg2+ binding site [ion binding]; other site 886377001132 G-X-G motif; other site 886377001133 Response regulator receiver domain; Region: Response_reg; pfam00072 886377001134 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 886377001135 active site 886377001136 phosphorylation site [posttranslational modification] 886377001137 intermolecular recognition site; other site 886377001138 dimerization interface [polypeptide binding]; other site 886377001139 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 886377001140 ligand binding site [chemical binding]; other site 886377001141 flexible hinge region; other site 886377001142 Helix-turn-helix domains; Region: HTH; cl00088 886377001143 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 886377001144 mce related protein; Region: MCE; pfam02470 886377001145 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 886377001146 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 886377001147 Walker A/P-loop; other site 886377001148 ATP binding site [chemical binding]; other site 886377001149 Q-loop/lid; other site 886377001150 ABC transporter signature motif; other site 886377001151 Walker B; other site 886377001152 D-loop; other site 886377001153 H-loop/switch region; other site 886377001154 Permease; Region: Permease; cl00510 886377001155 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 886377001156 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 886377001157 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 886377001158 active site 886377001159 dimer interface [polypeptide binding]; other site 886377001160 effector binding site; other site 886377001161 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 886377001162 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 886377001163 Ligand Binding Site [chemical binding]; other site 886377001164 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 886377001165 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377001166 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001167 active site 886377001168 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 886377001169 S-adenosylmethionine binding site [chemical binding]; other site 886377001170 Dodecin; Region: Dodecin; cl01328 886377001171 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 886377001172 phosphoenolpyruvate synthase; Validated; Region: PRK06464 886377001173 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377001174 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 886377001175 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; cl09155 886377001176 Domain of unknown function DUF302; Region: DUF302; cl01364 886377001177 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 886377001178 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 886377001179 classical (c) SDRs; Region: SDR_c; cd05233 886377001180 NAD(P) binding site [chemical binding]; other site 886377001181 active site 886377001182 KWG Leptospira; Region: KWG; pfam07656 886377001183 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 886377001184 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 886377001185 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 886377001186 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377001187 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001188 Cupin domain; Region: Cupin_2; cl09118 886377001189 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001190 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377001191 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377001192 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001193 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; cl00284 886377001194 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 886377001195 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 886377001196 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 886377001197 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 886377001198 S-adenosylmethionine binding site [chemical binding]; other site 886377001199 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 886377001200 substrate binding site [chemical binding]; other site 886377001201 dimer interface [polypeptide binding]; other site 886377001202 catalytic triad [active] 886377001203 DoxX; Region: DoxX; cl00976 886377001204 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 886377001205 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 886377001206 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 886377001207 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 886377001208 dihydropteroate synthase; Region: DHPS; TIGR01496 886377001209 substrate binding pocket [chemical binding]; other site 886377001210 dimer interface [polypeptide binding]; other site 886377001211 inhibitor binding site; inhibition site 886377001212 Uncharacterized conserved protein [Function unknown]; Region: COG1624 886377001213 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 886377001214 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377001215 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 886377001216 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 886377001217 Walker A/P-loop; other site 886377001218 ATP binding site [chemical binding]; other site 886377001219 Q-loop/lid; other site 886377001220 ABC transporter signature motif; other site 886377001221 Walker B; other site 886377001222 D-loop; other site 886377001223 H-loop/switch region; other site 886377001224 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 886377001225 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 886377001226 dimerization interface 3.5A [polypeptide binding]; other site 886377001227 active site 886377001228 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 886377001229 active site 886377001230 metal binding site [ion binding]; metal-binding site 886377001231 homotetramer interface [polypeptide binding]; other site 886377001232 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 886377001233 transcription termination factor Rho; Provisional; Region: PRK12678 886377001234 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 886377001235 transcription termination factor Rho; Provisional; Region: PRK12608 886377001236 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 886377001237 RNA binding site [nucleotide binding]; other site 886377001238 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 886377001239 multimer interface [polypeptide binding]; other site 886377001240 Walker A motif; other site 886377001241 ATP binding site [chemical binding]; other site 886377001242 Walker B motif; other site 886377001243 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 886377001244 prolyl-tRNA synthetase; Provisional; Region: PRK08661 886377001245 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 formation of...; Region: ProRS_core_arch_euk; cd00778 886377001246 dimer interface [polypeptide binding]; other site 886377001247 motif 1; other site 886377001248 active site 886377001249 motif 2; other site 886377001250 motif 3; other site 886377001251 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 886377001252 anticodon binding site; other site 886377001253 zinc-binding site [ion binding]; other site 886377001254 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377001255 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377001256 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377001257 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377001258 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377001259 active site 886377001260 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 886377001261 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377001262 active site 886377001263 HIGH motif; other site 886377001264 nucleotide binding site [chemical binding]; other site 886377001265 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 886377001266 KMSKS motif; other site 886377001267 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 886377001268 tRNA binding surface [nucleotide binding]; other site 886377001269 anticodon binding site; other site 886377001270 Haemolytic domain; Region: Haemolytic; cl00506 886377001271 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 886377001272 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 886377001273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 886377001274 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377001275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377001276 ABC transporter signature motif; other site 886377001277 Walker B; other site 886377001278 D-loop; other site 886377001279 H-loop/switch region; other site 886377001280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377001281 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 886377001282 Walker A/P-loop; other site 886377001283 ATP binding site [chemical binding]; other site 886377001284 Q-loop/lid; other site 886377001285 ABC transporter signature motif; other site 886377001286 Walker B; other site 886377001287 D-loop; other site 886377001288 H-loop/switch region; other site 886377001289 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 886377001290 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377001291 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 886377001292 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 886377001293 Protein export membrane protein; Region: SecD_SecF; cl14618 886377001294 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 886377001295 Protein export membrane protein; Region: SecD_SecF; cl14618 886377001296 malate dehydrogenase; Reviewed; Region: PRK06223 886377001297 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 886377001298 dimer interface [polypeptide binding]; other site 886377001299 NAD(P) binding site [chemical binding]; other site 886377001300 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377001301 substrate binding site [chemical binding]; other site 886377001302 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 886377001303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377001304 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 886377001305 anchoring element; other site 886377001306 dimer interface [polypeptide binding]; other site 886377001307 ATP binding site [chemical binding]; other site 886377001308 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 886377001309 active site 886377001310 putative metal-binding site [ion binding]; other site 886377001311 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 886377001312 asparagine synthetase B; Provisional; Region: asnB; PRK09431 886377001313 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 886377001314 active site 886377001315 dimer interface [polypeptide binding]; other site 886377001316 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 886377001317 Ligand Binding Site [chemical binding]; other site 886377001318 Molecular Tunnel; other site 886377001319 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 886377001320 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 886377001321 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 886377001322 active site 886377001323 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; cl00284 886377001324 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377001325 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 886377001326 TPR motif; other site 886377001327 binding surface 886377001328 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 886377001329 binding surface 886377001330 TPR motif; other site 886377001331 LemA family; Region: LemA; cl00742 886377001332 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 886377001333 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 886377001334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377001335 Walker A/P-loop; other site 886377001336 ATP binding site [chemical binding]; other site 886377001337 Q-loop/lid; other site 886377001338 ABC transporter signature motif; other site 886377001339 Walker B; other site 886377001340 D-loop; other site 886377001341 H-loop/switch region; other site 886377001342 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 886377001343 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 886377001344 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 886377001345 G1 box; other site 886377001346 putative GEF interaction site [polypeptide binding]; other site 886377001347 GTP/Mg2+ binding site [chemical binding]; other site 886377001348 Switch I region; other site 886377001349 G2 box; other site 886377001350 G3 box; other site 886377001351 Switch II region; other site 886377001352 G4 box; other site 886377001353 G5 box; other site 886377001354 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 886377001355 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 886377001356 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 886377001357 NeuB family; Region: NeuB; cl00496 886377001358 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001359 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 886377001360 N-terminal plug; other site 886377001361 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377001362 ligand-binding site [chemical binding]; other site 886377001363 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 886377001364 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377001365 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377001366 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377001367 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377001368 Protein of unknown function (DUF808); Region: DUF808; cl01002 886377001369 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 886377001370 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 886377001371 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377001372 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 886377001373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001377 Bacterial Ig-like domain; Region: Big_5; cl01012 886377001378 Bacterial Ig-like domain; Region: Big_5; cl01012 886377001379 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377001380 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 886377001381 transmembrane helices; other site 886377001382 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 886377001383 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377001384 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001385 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001386 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001387 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; cl00284 886377001388 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; cl00284 886377001389 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 886377001390 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 886377001391 active site 886377001392 substrate-binding site [chemical binding]; other site 886377001393 metal-binding site [ion binding] 886377001394 ATP binding site [chemical binding]; other site 886377001395 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 886377001396 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 886377001397 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 886377001398 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377001399 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 886377001400 LrgB-like family; Region: LrgB; cl00596 886377001401 LrgA family; Region: LrgA; cl00608 886377001402 cyclically-permuted mutatrotase family protein; Region: mutarot_permut; TIGR03548 886377001403 Kelch motif; Region: Kelch_1; cl02701 886377001404 Kelch motif; Region: Kelch_1; cl02701 886377001405 Sodium:solute symporter family; Region: SSF; cl00456 886377001406 putative transporter; Provisional; Region: PRK10484 886377001407 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 886377001408 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 886377001409 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 886377001410 active site 886377001411 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; cd00260 886377001412 catalytic site [active] 886377001413 BNR repeat-like domain; Region: BNR_2; pfam13088 886377001414 Asp-box motif; other site 886377001415 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 886377001416 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 886377001417 dimerization interface [polypeptide binding]; other site 886377001418 putative active cleft [active] 886377001419 Transcriptional regulators [Transcription]; Region: FadR; COG2186 886377001420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377001421 DNA-binding site [nucleotide binding]; DNA binding site 886377001422 FCD domain; Region: FCD; cl11656 886377001423 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001424 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001425 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001426 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377001427 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; cl00284 886377001428 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 886377001429 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; cl09108 886377001430 catalytic residue [active] 886377001431 HPP family; Region: HPP; pfam04982 886377001432 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377001433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001434 Family description; Region: VCBS; pfam13517 886377001435 Family description; Region: VCBS; pfam13517 886377001436 Family description; Region: VCBS; pfam13517 886377001437 Family description; Region: VCBS; pfam13517 886377001438 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377001439 Family description; Region: VCBS; pfam13517 886377001440 Family description; Region: VCBS; pfam13517 886377001441 Family description; Region: VCBS; pfam13517 886377001442 Family description; Region: VCBS; pfam13517 886377001443 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377001444 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377001445 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001446 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001447 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377001448 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377001449 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377001450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001451 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377001452 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 886377001453 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377001454 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 886377001455 galactokinase; Provisional; Region: PRK03817 886377001456 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377001457 Family description; Region: VCBS; pfam13517 886377001458 Family description; Region: VCBS; pfam13517 886377001459 Family description; Region: VCBS; pfam13517 886377001460 Family description; Region: VCBS; pfam13517 886377001461 Family description; Region: VCBS; pfam13517 886377001462 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377001463 Family description; Region: VCBS; pfam13517 886377001464 Family description; Region: VCBS; pfam13517 886377001465 Family description; Region: VCBS; pfam13517 886377001466 Family description; Region: VCBS; pfam13517 886377001467 FG-GAP repeat; Region: FG-GAP; cl15299 886377001468 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377001469 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377001470 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001471 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001472 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; cl00284 886377001473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377001474 DNA-binding site [nucleotide binding]; DNA binding site 886377001475 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 886377001476 putative ligand binding site [chemical binding]; other site 886377001477 putative dimerization interface [polypeptide binding]; other site 886377001478 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 886377001479 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 886377001480 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 886377001481 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 886377001482 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 886377001483 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377001484 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 886377001485 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 886377001486 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377001487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001488 Fatty acid desaturase; Region: FA_desaturase; pfam00487 886377001489 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 886377001490 putative di-iron ligands [ion binding]; other site 886377001491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377001492 DEAD-like helicases superfamily; Region: DEXDc; smart00487 886377001493 ATP binding site [chemical binding]; other site 886377001494 putative Mg++ binding site [ion binding]; other site 886377001495 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 886377001496 nucleotide binding region [chemical binding]; other site 886377001497 ATP-binding site [chemical binding]; other site 886377001498 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 protein; Region: CSP_CDS; cd04458 886377001499 DNA-binding site [nucleotide binding]; DNA binding site 886377001500 RNA-binding motif; other site 886377001501 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 protein; Region: CSP_CDS; cd04458 886377001502 DNA-binding site [nucleotide binding]; DNA binding site 886377001503 RNA-binding motif; other site 886377001505 PhoD-like phosphatase; Region: PhoD; pfam09423 886377001506 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377001507 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 886377001508 active site 886377001509 metal binding site [ion binding]; metal-binding site 886377001510 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377001511 active site 886377001512 metal binding site [ion binding]; metal-binding site 886377001513 4-aminobutyrate aminotransferase; Provisional; Region: PRK06082 886377001514 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 886377001515 inhibitor-cofactor binding pocket; inhibition site 886377001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377001517 catalytic residue [active] 886377001518 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377001519 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377001520 Sulfatase; Region: Sulfatase; cl10460 886377001521 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377001522 PA14 domain; Region: PA14; cl08459 886377001523 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377001524 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001525 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001526 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001527 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; cl00284 886377001528 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; cl00284 886377001529 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 886377001530 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 886377001531 sequence-specific DNA binding site [nucleotide binding]; other site 886377001532 salt bridge; other site 886377001533 Cupin domain; Region: Cupin_2; cl09118 886377001534 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 886377001535 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377001536 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 886377001537 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 886377001538 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377001539 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 886377001540 catalytic residues [active] 886377001541 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 886377001542 Ligand Binding Site [chemical binding]; other site 886377001543 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 886377001544 Ligand Binding Site [chemical binding]; other site 886377001545 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 886377001546 Ligand Binding Site [chemical binding]; other site 886377001547 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 886377001548 Ligand Binding Site [chemical binding]; other site 886377001549 putative transporter; Provisional; Region: PRK10484 886377001550 Sodium:solute symporter family; Region: SSF; cl00456 886377001551 Sodium:solute symporter family; Region: SSF; cl00456 886377001552 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 886377001553 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 886377001554 active site 886377001555 catalytic residues [active] 886377001556 L-arabinose isomerase; Provisional; Region: PRK02929 886377001557 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 886377001558 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 886377001559 trimer interface [polypeptide binding]; other site 886377001560 putative substrate binding site [chemical binding]; other site 886377001561 putative metal binding site [ion binding]; other site 886377001562 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 886377001563 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 886377001564 intersubunit interface [polypeptide binding]; other site 886377001565 active site 886377001566 Zn2+ binding site [ion binding]; other site 886377001567 ribulokinase; Provisional; Region: PRK04123 886377001568 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 886377001569 putative N- and C-terminal domain interface [polypeptide binding]; other site 886377001570 putative active site [active] 886377001571 putative MgATP binding site [chemical binding]; other site 886377001572 catalytic site [active] 886377001573 metal binding site [ion binding]; metal-binding site 886377001574 carbohydrate binding site [chemical binding]; other site 886377001575 homodimer interface [polypeptide binding]; other site 886377001576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 886377001577 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 886377001578 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 886377001579 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 886377001580 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377001581 nudix motif; other site 886377001582 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377001583 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 886377001584 active site 886377001585 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 886377001586 sugar binding site [chemical binding]; other site 886377001587 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377001588 calcium mediated ligand binding site; other site 886377001589 intermolecular salt bridges; other site 886377001590 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 886377001591 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377001592 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 886377001593 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 886377001594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 886377001595 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377001596 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377001597 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; cl12031 886377001598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001599 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 886377001600 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 886377001601 Proline racemase; Region: Pro_racemase; pfam05544 886377001602 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 886377001603 dimer interface [polypeptide binding]; other site 886377001604 NADP binding site [chemical binding]; other site 886377001605 catalytic residues [active] 886377001606 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 886377001607 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 886377001608 inhibitor site; inhibition site 886377001609 active site 886377001610 dimer interface [polypeptide binding]; other site 886377001611 catalytic residue [active] 886377001612 Cupin domain; Region: Cupin_2; cl09118 886377001613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377001614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377001615 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377001616 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001617 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001618 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; cl00284 886377001619 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377001620 active site 886377001621 catalytic site [active] 886377001622 substrate binding site [chemical binding]; other site 886377001623 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 886377001624 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377001625 GIY-YIG motif/motif A; other site 886377001626 active site 886377001627 catalytic site [active] 886377001628 putative DNA binding site [nucleotide binding]; other site 886377001629 metal binding site [ion binding]; metal-binding site 886377001630 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 886377001631 active site 886377001632 catalytic residues [active] 886377001633 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 886377001634 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 886377001635 metal binding site [ion binding]; metal-binding site 886377001636 dimer interface [polypeptide binding]; other site 886377001637 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377001638 FtsX-like permease family; Region: FtsX; cl15850 886377001639 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 886377001640 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377001641 Flagellin N-methylase; Region: FliB; cl00497 886377001642 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 886377001643 S-adenosylmethionine binding site [chemical binding]; other site 886377001644 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 886377001645 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 886377001646 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 886377001647 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 886377001648 homotrimer interaction site [polypeptide binding]; other site 886377001649 putative active site [active] 886377001650 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 886377001651 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377001652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377001653 Helix-turn-helix domains; Region: HTH; cl00088 886377001654 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; cl12031 886377001655 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377001656 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; cl12031 886377001657 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 886377001658 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377001659 putative metal binding site [ion binding]; other site 886377001660 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 886377001661 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 886377001662 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 886377001663 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 886377001664 homodimer interface [polypeptide binding]; other site 886377001665 NADP binding site [chemical binding]; other site 886377001666 substrate binding site [chemical binding]; other site 886377001667 signal recognition particle protein; Provisional; Region: PRK10867 886377001668 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 886377001669 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 886377001670 P loop; other site 886377001671 GTP binding site [chemical binding]; other site 886377001672 Signal peptide binding domain; Region: SRP_SPB; pfam02978 886377001673 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377001674 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377001675 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377001676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377001677 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 886377001678 DNA binding residues [nucleotide binding] 886377001679 FecR protein; Region: FecR; pfam04773 886377001680 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377001681 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001682 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; cl00284 886377001683 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 886377001684 putative active site [active] 886377001685 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 886377001686 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 886377001687 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377001688 active site 886377001689 HIGH motif; other site 886377001690 nucleotide binding site [chemical binding]; other site 886377001691 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 886377001692 KMSK motif region; other site 886377001693 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 886377001694 tRNA binding surface [nucleotide binding]; other site 886377001695 anticodon binding site; other site 886377001696 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 886377001697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377001698 NAD(P) binding site [chemical binding]; other site 886377001699 active site 886377001700 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 886377001701 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001702 Amidinotransferase; Region: Amidinotransf; cl12043 886377001703 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 886377001704 Amidinotransferase; Region: Amidinotransf; cl12043 886377001705 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 886377001706 dimer interface [polypeptide binding]; other site 886377001707 Citrate synthase; Region: Citrate_synt; pfam00285 886377001708 active site 886377001709 citrylCoA binding site [chemical binding]; other site 886377001710 NADH binding [chemical binding]; other site 886377001711 cationic pore residues; other site 886377001712 oxalacetate/citrate binding site [chemical binding]; other site 886377001713 coenzyme A binding site [chemical binding]; other site 886377001714 catalytic triad [active] 886377001715 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 886377001716 glycogen synthase; Provisional; Region: glgA; PRK00654 886377001717 ADP-binding pocket [chemical binding]; other site 886377001718 homodimer interface [polypeptide binding]; other site 886377001719 enolase; Provisional; Region: eno; PRK00077 886377001720 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 886377001721 dimer interface [polypeptide binding]; other site 886377001722 metal binding site [ion binding]; metal-binding site 886377001723 substrate binding pocket [chemical binding]; other site 886377001724 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 886377001725 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 886377001726 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 886377001727 catalytic site [active] 886377001728 subunit interface [polypeptide binding]; other site 886377001729 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 886377001730 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 886377001731 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 886377001732 alphaNTD homodimer interface [polypeptide binding]; other site 886377001733 alphaNTD - beta interaction site [polypeptide binding]; other site 886377001734 alphaNTD - beta' interaction site [polypeptide binding]; other site 886377001735 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 886377001736 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 886377001737 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 886377001738 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 886377001739 RNA binding surface [nucleotide binding]; other site 886377001740 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 886377001741 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 886377001742 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 886377001743 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 886377001744 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 886377001745 rRNA binding site [nucleotide binding]; other site 886377001746 predicted 30S ribosome binding site; other site 886377001747 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 886377001748 SecY translocase; Region: SecY; pfam00344 886377001749 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 886377001750 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 886377001751 23S rRNA binding site [nucleotide binding]; other site 886377001752 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 886377001753 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 886377001754 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 886377001755 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 886377001756 5S rRNA interface [nucleotide binding]; other site 886377001757 L27 interface [polypeptide binding]; other site 886377001758 23S rRNA interface [nucleotide binding]; other site 886377001759 L5 interface [polypeptide binding]; other site 886377001760 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 886377001761 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 886377001762 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 886377001763 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 886377001764 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 886377001765 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 886377001766 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 886377001767 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 886377001768 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 886377001769 KOW motif; Region: KOW; cl00354 886377001770 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 886377001771 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 886377001772 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; cl09943 886377001773 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 886377001774 23S rRNA interface [nucleotide binding]; other site 886377001775 5S rRNA interface [nucleotide binding]; other site 886377001776 putative antibiotic binding site [chemical binding]; other site 886377001777 L25 interface [polypeptide binding]; other site 886377001778 L27 interface [polypeptide binding]; other site 886377001779 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 886377001780 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 886377001781 G-X-X-G motif; other site 886377001782 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 886377001783 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 886377001784 putative translocon binding site; other site 886377001785 protein-rRNA interface [nucleotide binding]; other site 886377001786 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 886377001787 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 886377001788 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 886377001789 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 886377001790 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 886377001791 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 886377001792 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 886377001793 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 886377001794 elongation factor G; Reviewed; Region: PRK12739 886377001795 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 886377001796 G1 box; other site 886377001797 putative GEF interaction site [polypeptide binding]; other site 886377001798 GTP/Mg2+ binding site [chemical binding]; other site 886377001799 Switch I region; other site 886377001800 G2 box; other site 886377001801 G3 box; other site 886377001802 Switch II region; other site 886377001803 G4 box; other site 886377001804 G5 box; other site 886377001805 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 886377001806 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 886377001807 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 886377001808 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 886377001809 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 886377001810 S17 interaction site [polypeptide binding]; other site 886377001811 S8 interaction site; other site 886377001812 16S rRNA interaction site [nucleotide binding]; other site 886377001813 streptomycin interaction site [chemical binding]; other site 886377001814 23S rRNA interaction site [nucleotide binding]; other site 886377001815 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 886377001816 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377001817 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377001818 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; cl00284 886377001819 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; cl00284 886377001820 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377001821 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 886377001822 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 886377001823 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 886377001824 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 886377001825 Rhomboid family; Region: Rhomboid; cl11446 886377001826 recombination factor protein RarA; Reviewed; Region: PRK13342 886377001827 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 886377001828 Walker A motif; other site 886377001829 ATP binding site [chemical binding]; other site 886377001830 Walker B motif; other site 886377001831 arginine finger; other site 886377001832 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 886377001833 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 886377001834 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 886377001835 motif II; other site 886377001836 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 886377001837 putative active site [active] 886377001838 putative catalytic site [active] 886377001839 hypothetical protein; Reviewed; Region: PRK00024 886377001840 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377001841 MPN+ (JAMM) motif; other site 886377001842 Zinc-binding site [ion binding]; other site 886377001843 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 886377001844 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 886377001845 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377001846 Cupin domain; Region: Cupin_2; cl09118 886377001847 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 886377001848 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 886377001849 putative NAD(P) binding site [chemical binding]; other site 886377001850 putative active site [active] 886377001851 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377001852 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 886377001853 active site 886377001854 phosphorylation site [posttranslational modification] 886377001855 intermolecular recognition site; other site 886377001856 dimerization interface [polypeptide binding]; other site 886377001857 LytTr DNA-binding domain; Region: LytTR; cl04498 886377001858 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 886377001859 Histidine kinase; Region: His_kinase; pfam06580 886377001860 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377001861 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 886377001862 GTPase CgtA; Reviewed; Region: obgE; PRK12299 886377001863 GTP1/OBG; Region: GTP1_OBG; pfam01018 886377001864 Obg GTPase; Region: Obg; cd01898 886377001865 G1 box; other site 886377001866 GTP/Mg2+ binding site [chemical binding]; other site 886377001867 Switch I region; other site 886377001868 G2 box; other site 886377001869 G3 box; other site 886377001870 Switch II region; other site 886377001871 G4 box; other site 886377001872 G5 box; other site 886377001873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377001874 active site 886377001875 adenylate kinase; Reviewed; Region: adk; PRK00279 886377001876 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 886377001877 AMP-binding site [chemical binding]; other site 886377001878 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 886377001879 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 886377001880 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377001881 AIR carboxylase; Region: AIRC; cl00310 886377001882 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 886377001883 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 886377001884 active site 886377001885 Zn binding site [ion binding]; other site 886377001886 putative diguanylate cyclase; Provisional; Region: PRK09776 886377001887 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 886377001888 PAS fold; Region: PAS_3; pfam08447 886377001889 putative active site [active] 886377001890 heme pocket [chemical binding]; other site 886377001891 PAS domain S-box; Region: sensory_box; TIGR00229 886377001892 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 886377001893 putative active site [active] 886377001894 heme pocket [chemical binding]; other site 886377001895 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377001896 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 886377001897 ATP binding site [chemical binding]; other site 886377001898 Mg2+ binding site [ion binding]; other site 886377001899 G-X-G motif; other site 886377001900 Response regulator receiver domain; Region: Response_reg; pfam00072 886377001901 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 886377001902 active site 886377001903 phosphorylation site [posttranslational modification] 886377001904 intermolecular recognition site; other site 886377001905 dimerization interface [polypeptide binding]; other site 886377001906 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377001907 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 886377001908 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 886377001909 DNA binding residues [nucleotide binding] 886377001910 UbiA prenyltransferase family; Region: UbiA; cl00337 886377001911 glycine dehydrogenase; Provisional; Region: PRK05367 886377001912 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 886377001913 tetramer interface [polypeptide binding]; other site 886377001914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377001915 catalytic residue [active] 886377001916 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 886377001917 tetramer interface [polypeptide binding]; other site 886377001918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377001919 catalytic residue [active] 886377001920 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 886377001921 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 886377001922 dimer interface [polypeptide binding]; other site 886377001923 active site 886377001924 CoA binding pocket [chemical binding]; other site 886377001925 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; cl16911 886377001926 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 886377001927 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 886377001928 DXD motif; other site 886377001929 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 886377001930 binding surface 886377001931 TPR repeat; Region: TPR_11; pfam13414 886377001932 TPR motif; other site 886377001933 TPR repeat; Region: TPR_11; pfam13414 886377001934 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 886377001935 binding surface 886377001936 TPR motif; other site 886377001937 TPR repeat; Region: TPR_11; pfam13414 886377001938 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 886377001939 binding surface 886377001940 TPR motif; other site 886377001941 TPR repeat; Region: TPR_11; pfam13414 886377001942 Sulfatase; Region: Sulfatase; cl10460 886377001943 Sulfatase; Region: Sulfatase; cl10460 886377001944 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 886377001945 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 886377001946 Sulfatase; Region: Sulfatase; cl10460 886377001947 Permease; Region: Permease; cl00510 886377001948 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 886377001949 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 886377001950 Walker A/P-loop; other site 886377001951 ATP binding site [chemical binding]; other site 886377001952 Q-loop/lid; other site 886377001953 ABC transporter signature motif; other site 886377001954 Walker B; other site 886377001955 D-loop; other site 886377001956 H-loop/switch region; other site 886377001957 Domain of unknown function (DUF389); Region: DUF389; cl00781 886377001958 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 886377001959 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 886377001960 Substrate binding site; other site 886377001961 Cupin domain; Region: Cupin_2; cl09118 886377001962 SprT-like family; Region: SprT-like; pfam10263 886377001963 short chain dehydrogenase; Provisional; Region: PRK12828 886377001964 classical (c) SDRs; Region: SDR_c; cd05233 886377001965 NAD(P) binding site [chemical binding]; other site 886377001966 active site 886377001967 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 886377001968 metal binding site [ion binding]; metal-binding site 886377001969 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 886377001970 E3 interaction surface; other site 886377001971 lipoyl attachment site [posttranslational modification]; other site 886377001972 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 886377001973 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 886377001974 E3 interaction surface; other site 886377001975 lipoyl attachment site [posttranslational modification]; other site 886377001976 e3 binding domain; Region: E3_binding; pfam02817 886377001977 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 886377001978 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 886377001979 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 886377001980 tetramer interface [polypeptide binding]; other site 886377001981 TPP-binding site [chemical binding]; other site 886377001982 heterodimer interface [polypeptide binding]; other site 886377001983 phosphorylation loop region [posttranslational modification] 886377001984 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 886377001985 active site 886377001986 catalytic motif [active] 886377001987 Zn binding site [ion binding]; other site 886377001988 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 886377001989 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377001990 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 886377001991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377001992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377001993 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 886377001994 non-specific DNA binding site [nucleotide binding]; other site 886377001995 salt bridge; other site 886377001996 sequence-specific DNA binding site [nucleotide binding]; other site 886377001997 Protein of unknown function (DUF972); Region: DUF972; pfam06156 886377001998 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377001999 active site 886377002000 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377002001 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377002003 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377002004 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377002005 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377002006 Helix-turn-helix domains; Region: HTH; cl00088 886377002007 Helix-turn-helix domains; Region: HTH; cl00088 886377002008 putative transposase OrfB; Reviewed; Region: PHA02517 886377002009 Integrase core domain; Region: rve; cl01316 886377002010 Integrase core domain; Region: rve_3; cl15866 886377002011 Helix-turn-helix domains; Region: HTH; cl00088 886377002012 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 886377002013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377002014 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377002015 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 886377002016 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 886377002017 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; cl15357 886377002018 transmembrane helices; other site 886377002019 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377002020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377002021 active site 886377002022 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 886377002023 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 886377002024 active site 886377002025 dimer interface [polypeptide binding]; other site 886377002026 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 886377002027 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 886377002028 active site 886377002029 FMN binding site [chemical binding]; other site 886377002030 substrate binding site [chemical binding]; other site 886377002031 3Fe-4S cluster binding site [ion binding]; other site 886377002032 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 886377002033 domain interface; other site 886377002034 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 886377002035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002036 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 886377002037 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377002038 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002039 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002040 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377002041 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; cl00284 886377002042 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 886377002043 RNA/DNA hybrid binding site [nucleotide binding]; other site 886377002044 active site 886377002045 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377002046 ligand binding site [chemical binding]; other site 886377002047 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 886377002048 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377002049 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377002050 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377002051 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 886377002052 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 886377002053 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 886377002054 DNA binding residues [nucleotide binding] 886377002055 dimerization interface [polypeptide binding]; other site 886377002056 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 886377002057 catalytic residues [active] 886377002058 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 886377002059 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 886377002060 dimer interface [polypeptide binding]; other site 886377002061 putative anticodon binding site; other site 886377002062 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 886377002063 motif 1; other site 886377002064 active site 886377002065 motif 2; other site 886377002066 motif 3; other site 886377002067 Predicted membrane-associated trancriptional regulator [Transcription]; Region: COG2512 886377002068 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002069 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; cl00284 886377002070 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002071 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; cl00284 886377002072 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377002073 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 886377002074 transmembrane helices; other site 886377002075 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 886377002076 active site 886377002077 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 886377002078 FMN-binding domain; Region: FMN_bind; cl01081 886377002079 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 886377002080 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 886377002081 N-terminal plug; other site 886377002082 ligand-binding site [chemical binding]; other site 886377002083 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cl12009 886377002084 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377002085 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 886377002086 non-specific DNA binding site [nucleotide binding]; other site 886377002087 salt bridge; other site 886377002088 sequence-specific DNA binding site [nucleotide binding]; other site 886377002089 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 886377002090 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 886377002091 inhibitor-cofactor binding pocket; inhibition site 886377002092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002093 catalytic residue [active] 886377002094 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 886377002095 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377002096 putative peptidoglycan binding site; other site 886377002097 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 886377002098 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 886377002099 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377002100 catalytic residue [active] 886377002101 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 886377002102 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 886377002103 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 886377002104 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 886377002105 cofactor binding site; other site 886377002106 metal binding site [ion binding]; metal-binding site 886377002107 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 886377002108 GSCFA family; Region: GSCFA; pfam08885 886377002109 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 886377002110 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 formation of...; Region: AlaRS_core; cd00673 886377002111 motif 1; other site 886377002112 active site 886377002113 motif 2; other site 886377002114 motif 3; other site 886377002115 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 886377002116 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377002117 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 886377002118 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 886377002119 DNA binding residues [nucleotide binding] 886377002120 LemA family; Region: LemA; cl00742 886377002121 Repair protein; Region: Repair_PSII; cl01535 886377002122 Repair protein; Region: Repair_PSII; cl01535 886377002123 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 886377002124 MG2 domain; Region: A2M_N; pfam01835 886377002125 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 886377002126 Alpha-2-macroglobulin family; Region: A2M; pfam00207 886377002127 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 886377002128 surface patch; other site 886377002129 thioester region; other site 886377002130 specificity defining residues; other site 886377002131 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 886377002132 Transglycosylase; Region: Transgly; cl07896 886377002133 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377002134 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 886377002135 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 886377002136 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 886377002138 GTP-binding protein Der; Reviewed; Region: PRK00093 886377002139 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 886377002140 G1 box; other site 886377002141 GTP/Mg2+ binding site [chemical binding]; other site 886377002142 Switch I region; other site 886377002143 G2 box; other site 886377002144 Switch II region; other site 886377002145 G3 box; other site 886377002146 G4 box; other site 886377002147 G5 box; other site 886377002148 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 886377002149 G1 box; other site 886377002150 GTP/Mg2+ binding site [chemical binding]; other site 886377002151 Switch I region; other site 886377002152 G2 box; other site 886377002153 G3 box; other site 886377002154 Switch II region; other site 886377002155 G4 box; other site 886377002156 G5 box; other site 886377002157 GTPase Era; Reviewed; Region: era; PRK00089 886377002158 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 886377002159 G1 box; other site 886377002160 GTP/Mg2+ binding site [chemical binding]; other site 886377002161 Switch I region; other site 886377002162 G2 box; other site 886377002163 Switch II region; other site 886377002164 G3 box; other site 886377002165 G4 box; other site 886377002166 G5 box; other site 886377002167 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 886377002168 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377002169 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377002170 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377002172 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002173 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002174 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; cl00284 886377002175 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; cl00284 886377002176 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377002177 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377002178 MFS transport protein AraJ; Provisional; Region: PRK10091 886377002179 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 886377002180 putative substrate translocation pore; other site 886377002181 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 886377002182 active site 886377002183 catalytic residues [active] 886377002184 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 886377002185 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377002186 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377002187 Protein export membrane protein; Region: SecD_SecF; cl14618 886377002188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377002189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377002190 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 886377002191 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 886377002192 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 886377002193 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377002194 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377002195 ABC transporter; Region: ABC_tran_2; pfam12848 886377002196 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377002197 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 886377002198 gliding motility associated protien GldN; Region: GldN; TIGR03523 886377002199 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 886377002200 GldM N-terminal domain; Region: GldM_N; pfam12081 886377002201 GldM C-terminal domain; Region: GldM_C; pfam12080 886377002202 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 886377002203 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 886377002204 Arginase family; Region: Arginase; cl00306 886377002205 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 886377002206 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 886377002207 active site 886377002208 interdomain interaction site; other site 886377002209 putative metal-binding site [ion binding]; other site 886377002210 nucleotide binding site [chemical binding]; other site 886377002211 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 886377002212 domain I; other site 886377002213 DNA binding groove [nucleotide binding] 886377002214 phosphate binding site [ion binding]; other site 886377002215 domain II; other site 886377002216 domain III; other site 886377002217 nucleotide binding site [chemical binding]; other site 886377002218 catalytic site [active] 886377002219 domain IV; other site 886377002220 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 886377002221 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 886377002222 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; cl01922 886377002223 catalytic site [active] 886377002224 Asp-box motif; other site 886377002225 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377002226 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 886377002227 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 886377002228 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377002229 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 886377002230 FeS/SAM binding site; other site 886377002231 TRAM domain; Region: TRAM; cl01282 886377002232 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 886377002233 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 886377002234 Walker A motif; other site 886377002235 ATP binding site [chemical binding]; other site 886377002236 Walker B motif; other site 886377002237 arginine finger; other site 886377002238 Helix-turn-helix domains; Region: HTH; cl00088 886377002239 Lipopolysaccharide-assembly; Region: LptE; cl01125 886377002240 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 886377002241 oligomerisation interface [polypeptide binding]; other site 886377002242 mobile loop; other site 886377002243 roof hairpin; other site 886377002244 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 886377002245 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 886377002246 ring oligomerisation interface [polypeptide binding]; other site 886377002247 ATP/Mg binding site [chemical binding]; other site 886377002248 stacking interactions; other site 886377002249 hinge regions; other site 886377002250 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377002251 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377002252 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 886377002253 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377002254 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 886377002255 metal-binding site [ion binding] 886377002256 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 886377002257 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377002258 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377002259 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377002260 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002261 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377002262 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377002263 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 886377002264 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 886377002265 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377002266 GAF domain; Region: GAF; cl15785 886377002267 GAF domain; Region: GAF_2; pfam13185 886377002268 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 886377002269 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 886377002270 purine monophosphate binding site [chemical binding]; other site 886377002271 dimer interface [polypeptide binding]; other site 886377002272 putative catalytic residues [active] 886377002273 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 886377002274 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 886377002275 rod shape-determining protein MreB; Provisional; Region: PRK13927 886377002276 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 886377002277 ATP binding site [chemical binding]; other site 886377002278 profilin binding site; other site 886377002279 Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins; Region: Cby_like; cd07429 886377002280 rod shape-determining protein MreC; Region: MreC; pfam04085 886377002281 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 886377002282 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 886377002283 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377002284 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 886377002285 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 886377002286 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 886377002287 active site 886377002288 substrate binding site [chemical binding]; other site 886377002289 Mg2+ binding site [ion binding]; other site 886377002290 carboxy-terminal protease; Provisional; Region: PRK11186 886377002291 C-terminal peptidase (prc); Region: prc; TIGR00225 886377002292 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 886377002293 protein binding site [polypeptide binding]; other site 886377002294 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377002295 Catalytic dyad [active] 886377002296 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 886377002297 Survival protein SurE; Region: SurE; cl00448 886377002298 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 886377002299 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 886377002300 NlpC/P60 family; Region: NLPC_P60; cl11438 886377002301 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 886377002302 Competence protein; Region: Competence; cl00471 886377002303 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 886377002304 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 886377002305 putative substrate translocation pore; other site 886377002306 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; cl11420 886377002307 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377002308 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377002309 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; cl12031 886377002310 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 886377002311 homodimer interface [polypeptide binding]; other site 886377002312 catalytic residues [active] 886377002313 NAD binding site [chemical binding]; other site 886377002314 substrate binding pocket [chemical binding]; other site 886377002315 flexible flap; other site 886377002316 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 886377002317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377002318 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377002319 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002320 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002321 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002322 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377002323 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; cl00284 886377002324 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377002325 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377002326 SurA N-terminal domain; Region: SurA_N_3; cl07813 886377002327 PPIC-type PPIASE domain; Region: Rotamase; cl08278 886377002328 PPIC-type PPIASE domain; Region: Rotamase; cl08278 886377002329 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 886377002330 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 886377002331 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377002332 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 886377002333 Transporter associated domain; Region: CorC_HlyC; cl08393 886377002334 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 886377002335 photosystem I assembly protein Ycf3; Region: ycf3; CHL00033 886377002336 Type III pantothenate kinase; Region: Pan_kinase; cl09130 886377002337 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 886377002338 DnaA N-terminal domain; Region: DnaA_N; pfam11638 886377002339 TIR domain; Region: TIR_2; cl15770 886377002340 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 886377002341 non-specific DNA binding site [nucleotide binding]; other site 886377002342 salt bridge; other site 886377002343 sequence-specific DNA binding site [nucleotide binding]; other site 886377002344 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377002345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002346 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 886377002347 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 886377002348 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 886377002349 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 886377002350 putative active site [active] 886377002351 catalytic site [active] 886377002352 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 886377002353 putative active site [active] 886377002354 catalytic site [active] 886377002355 GH3 auxin-responsive promoter; Region: GH3; cl04006 886377002356 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 886377002357 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 886377002358 substrate binding [chemical binding]; other site 886377002359 active site 886377002360 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 886377002361 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 886377002362 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 886377002363 Methyltransferase domain; Region: Methyltransf_31; pfam13847 886377002364 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 886377002365 S-adenosylmethionine binding site [chemical binding]; other site 886377002366 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 886377002367 active site 886377002368 metal binding site [ion binding]; metal-binding site 886377002369 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; cl02713 886377002370 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 886377002371 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 886377002372 4Fe-4S binding domain; Region: Fer4_5; pfam12801 886377002373 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 886377002374 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 886377002375 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 886377002376 4Fe-4S binding domain; Region: Fer4; cl02805 886377002377 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 886377002378 Ligand binding site; other site 886377002379 Putative Catalytic site; other site 886377002380 DXD motif; other site 886377002381 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 886377002382 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 886377002383 DXD motif; other site 886377002384 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 886377002385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377002386 Coenzyme A binding pocket [chemical binding]; other site 886377002387 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 886377002388 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 886377002389 Ligand Binding Site [chemical binding]; other site 886377002390 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 886377002391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002392 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 886377002393 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 886377002394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002395 acetylornithine aminotransferase; Provisional; Region: PRK02627 886377002396 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 886377002397 inhibitor-cofactor binding pocket; inhibition site 886377002398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002399 catalytic residue [active] 886377002400 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 886377002401 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 886377002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002403 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 886377002404 classical (c) SDRs; Region: SDR_c; cd05233 886377002405 NAD(P) binding site [chemical binding]; other site 886377002406 active site 886377002407 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 886377002408 nucleotide binding site [chemical binding]; other site 886377002409 N-acetyl-L-glutamate binding site [chemical binding]; other site 886377002410 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 886377002411 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 886377002412 metal binding site [ion binding]; metal-binding site 886377002413 dimer interface [polypeptide binding]; other site 886377002414 argininosuccinate lyase; Provisional; Region: PRK00855 886377002415 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 886377002416 active sites [active] 886377002417 tetramer interface [polypeptide binding]; other site 886377002418 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377002419 putative ligand binding site [chemical binding]; other site 886377002420 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 886377002421 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 886377002422 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 886377002423 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 886377002424 RNA binding surface [nucleotide binding]; other site 886377002425 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 886377002426 active site 886377002427 UbiA prenyltransferase family; Region: UbiA; cl00337 886377002428 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 886377002429 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377002430 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 886377002431 TspO/MBR family; Region: TspO_MBR; cl01379 886377002432 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 886377002433 glycerol kinase; Provisional; Region: glpK; PRK00047 886377002434 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 886377002435 N- and C-terminal domain interface [polypeptide binding]; other site 886377002436 active site 886377002437 MgATP binding site [chemical binding]; other site 886377002438 catalytic site [active] 886377002439 metal binding site [ion binding]; metal-binding site 886377002440 glycerol binding site [chemical binding]; other site 886377002441 homotetramer interface [polypeptide binding]; other site 886377002442 homodimer interface [polypeptide binding]; other site 886377002443 FBP binding site [chemical binding]; other site 886377002444 protein IIAGlc interface [polypeptide binding]; other site 886377002445 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 886377002446 amphipathic channel; other site 886377002447 Asn-Pro-Ala signature motifs; other site 886377002448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002449 flavoprotein, HI0933 family; Region: TIGR00275 886377002450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002451 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 886377002452 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 886377002453 active site 886377002454 catalytic site [active] 886377002455 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 886377002456 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 886377002457 active site 886377002458 catalytic site [active] 886377002459 Transcriptional regulators [Transcription]; Region: PurR; COG1609 886377002460 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 886377002461 DNA binding site [nucleotide binding] 886377002462 domain linker motif; other site 886377002463 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 886377002464 dimerization interface [polypeptide binding]; other site 886377002465 ligand binding site [chemical binding]; other site 886377002466 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377002467 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002468 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; cl00284 886377002469 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; cl00284 886377002470 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377002471 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377002472 Family description; Region: VCBS; pfam13517 886377002473 Family description; Region: VCBS; pfam13517 886377002474 Family description; Region: VCBS; pfam13517 886377002475 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002476 Family description; Region: VCBS; pfam13517 886377002477 Family description; Region: VCBS; pfam13517 886377002478 Family description; Region: VCBS; pfam13517 886377002479 Family description; Region: VCBS; pfam13517 886377002480 Family description; Region: VCBS; pfam13517 886377002481 Family description; Region: VCBS; pfam13517 886377002482 Family description; Region: VCBS; pfam13517 886377002483 Family description; Region: VCBS; pfam13517 886377002484 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002485 Family description; Region: VCBS; pfam13517 886377002486 Family description; Region: VCBS; pfam13517 886377002487 Family description; Region: VCBS; pfam13517 886377002488 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377002489 Family description; Region: VCBS; pfam13517 886377002490 Family description; Region: VCBS; pfam13517 886377002491 Family description; Region: VCBS; pfam13517 886377002492 Family description; Region: VCBS; pfam13517 886377002493 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 886377002494 active site 886377002495 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 886377002496 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 886377002497 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 886377002498 ATP binding site [chemical binding]; other site 886377002499 putative Mg++ binding site [ion binding]; other site 886377002500 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 886377002501 nucleotide binding region [chemical binding]; other site 886377002502 ATP-binding site [chemical binding]; other site 886377002503 RQC domain; Region: RQC; cl09632 886377002504 HRDC domain; Region: HRDC; cl02578 886377002505 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 886377002506 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377002507 active site 886377002508 metal binding site [ion binding]; metal-binding site 886377002509 Surface antigen; Region: Bac_surface_Ag; cl03097 886377002510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377002511 Zn2+ binding site [ion binding]; other site 886377002512 Mg2+ binding site [ion binding]; other site 886377002513 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377002514 putative active site [active] 886377002515 putative metal binding site [ion binding]; other site 886377002516 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 886377002517 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377002518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377002519 OpgC protein; Region: OpgC_C; cl00792 886377002520 Acyltransferase family; Region: Acyl_transf_3; pfam01757 886377002521 Penicillin amidase; Region: Penicil_amidase; pfam01804 886377002522 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 886377002523 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 886377002524 active site 886377002525 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 886377002526 Repair protein; Region: Repair_PSII; cl01535 886377002527 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377002528 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 886377002529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377002530 Walker A/P-loop; other site 886377002531 ATP binding site [chemical binding]; other site 886377002532 Q-loop/lid; other site 886377002533 ABC transporter signature motif; other site 886377002534 Walker B; other site 886377002535 D-loop; other site 886377002536 H-loop/switch region; other site 886377002537 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 886377002538 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 886377002539 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 886377002540 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 886377002541 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377002542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377002543 NifU-like domain; Region: NifU; cl00484 886377002544 Domain of unknown function DUF59; Region: DUF59; cl00941 886377002545 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 886377002546 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 886377002547 Walker A motif; other site 886377002548 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 886377002549 Amidase; Region: Amidase; cl11426 886377002550 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 886377002551 DNA binding site [nucleotide binding] 886377002552 active site 886377002553 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; cl16911 886377002554 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 886377002555 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 886377002556 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 886377002557 dimer interface [polypeptide binding]; other site 886377002558 phosphorylation site [posttranslational modification] 886377002559 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 886377002560 ATP binding site [chemical binding]; other site 886377002561 Mg2+ binding site [ion binding]; other site 886377002562 G-X-G motif; other site 886377002563 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377002564 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 886377002565 active site 886377002566 phosphorylation site [posttranslational modification] 886377002567 intermolecular recognition site; other site 886377002568 dimerization interface [polypeptide binding]; other site 886377002569 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 886377002570 DNA binding site [nucleotide binding] 886377002571 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002572 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 886377002573 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; cl00284 886377002574 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; cl00284 886377002575 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377002576 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377002577 AMP-binding enzyme; Region: AMP-binding; cl15778 886377002578 AMP-binding enzyme; Region: AMP-binding; cl15778 886377002579 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 886377002580 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 886377002581 active site 886377002582 HIGH motif; other site 886377002583 dimer interface [polypeptide binding]; other site 886377002584 KMSKS motif; other site 886377002585 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377002586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002587 NAD(P) binding site [chemical binding]; other site 886377002588 active site 886377002589 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 886377002590 dihydroorotase; Reviewed; Region: PRK09236 886377002591 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 886377002592 active site 886377002593 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 886377002594 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 886377002595 Ligand binding site; other site 886377002596 Putative Catalytic site; other site 886377002597 DXD motif; other site 886377002598 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002599 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 886377002600 Late embryogenesis abundant protein; Region: LEA_2; cl12118 886377002601 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 886377002602 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 886377002603 active site 886377002604 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 886377002605 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 886377002606 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 886377002607 active site 886377002608 substrate-binding site [chemical binding]; other site 886377002609 metal-binding site [ion binding] 886377002610 ATP binding site [chemical binding]; other site 886377002611 Protein of unknown function (DUF423); Region: DUF423; cl01008 886377002612 lysine-ketoglutarate reductase/saccharopine dehydrogenase; Region: PLN02819 886377002613 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 886377002614 Helix-turn-helix domains; Region: HTH; cl00088 886377002615 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 886377002616 Ferritin-like domain; Region: Ferritin; pfam00210 886377002617 ferroxidase diiron center [ion binding]; other site 886377002618 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377002619 DinB superfamily; Region: DinB_2; pfam12867 886377002620 Helix-turn-helix domains; Region: HTH; cl00088 886377002621 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 886377002622 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377002623 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 886377002624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002625 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 886377002626 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002627 active site 886377002628 HIGH motif; other site 886377002629 nucleotide binding site [chemical binding]; other site 886377002630 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 886377002631 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002632 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002633 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002634 active site 886377002635 KMSKS motif; other site 886377002636 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 886377002637 tRNA binding surface [nucleotide binding]; other site 886377002638 FtsX-like permease family; Region: FtsX; cl15850 886377002639 FtsX-like permease family; Region: FtsX; cl15850 886377002640 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 886377002641 Bacitracin resistance protein BacA; Region: BacA; cl00858 886377002642 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 886377002643 RNA binding site [nucleotide binding]; other site 886377002644 active site 886377002645 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377002646 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 886377002647 catalytic residues [active] 886377002648 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377002649 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 886377002650 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 886377002651 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 886377002652 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377002653 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 886377002654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377002655 Walker A/P-loop; other site 886377002656 ATP binding site [chemical binding]; other site 886377002657 Q-loop/lid; other site 886377002658 ABC transporter signature motif; other site 886377002659 Walker B; other site 886377002660 D-loop; other site 886377002661 H-loop/switch region; other site 886377002662 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377002663 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 886377002664 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377002665 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 886377002666 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 886377002667 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 886377002668 ATP binding site [chemical binding]; other site 886377002669 Mg2+ binding site [ion binding]; other site 886377002670 G-X-G motif; other site 886377002671 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 886377002672 nucleotide binding site/active site [active] 886377002673 HIT family signature motif; other site 886377002674 catalytic residue [active] 886377002675 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 886377002676 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 886377002677 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377002678 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 886377002679 iron-sulfur cluster [ion binding]; other site 886377002680 [2Fe-2S] cluster binding site [ion binding]; other site 886377002681 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 886377002682 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 886377002683 active site 886377002684 catalytic tetrad [active] 886377002685 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; cl00284 886377002686 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377002687 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 886377002688 dimer interface [polypeptide binding]; other site 886377002689 phosphorylation site [posttranslational modification] 886377002690 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 886377002691 ATP binding site [chemical binding]; other site 886377002692 Mg2+ binding site [ion binding]; other site 886377002693 G-X-G motif; other site 886377002694 Response regulator receiver domain; Region: Response_reg; pfam00072 886377002695 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 886377002696 active site 886377002697 phosphorylation site [posttranslational modification] 886377002698 intermolecular recognition site; other site 886377002699 dimerization interface [polypeptide binding]; other site 886377002700 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377002701 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 886377002702 active site 886377002703 phosphorylation site [posttranslational modification] 886377002704 intermolecular recognition site; other site 886377002705 dimerization interface [polypeptide binding]; other site 886377002706 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 886377002707 Walker A motif; other site 886377002708 ATP binding site [chemical binding]; other site 886377002709 Walker B motif; other site 886377002710 arginine finger; other site 886377002711 Helix-turn-helix domains; Region: HTH; cl00088 886377002712 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 886377002713 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 886377002714 AAA domain; Region: AAA_28; pfam13521 886377002715 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377002716 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 886377002717 Domain of unknown function DUF77; Region: DUF77; cl00307 886377002718 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 886377002719 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 886377002720 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 886377002721 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 886377002722 oligomerization interface [polypeptide binding]; other site 886377002723 active site 886377002724 NAD+ binding site [chemical binding]; other site 886377002725 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 886377002726 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 886377002727 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 886377002728 dimer interface [polypeptide binding]; other site 886377002729 active site 886377002730 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377002731 substrate binding site [chemical binding]; other site 886377002732 catalytic residue [active] 886377002734 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 886377002735 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 886377002736 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 886377002737 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 886377002738 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377002739 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377002740 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377002741 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377002742 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377002743 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377002744 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 886377002745 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 886377002746 N-terminal plug; other site 886377002747 ligand-binding site [chemical binding]; other site 886377002748 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 886377002749 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377002750 gliding motility-associated protein GldE; Region: GldE; TIGR03520 886377002751 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 886377002752 Transporter associated domain; Region: CorC_HlyC; cl08393 886377002753 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 886377002754 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 886377002755 dimer interface [polypeptide binding]; other site 886377002756 ssDNA binding site [nucleotide binding]; other site 886377002757 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377002758 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 886377002759 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 886377002760 minor groove reading motif; other site 886377002761 helix-hairpin-helix signature motif; other site 886377002762 substrate binding pocket [chemical binding]; other site 886377002763 active site 886377002764 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 886377002765 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 886377002766 DNA binding and oxoG recognition site [nucleotide binding] 886377002767 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 886377002768 IHF - DNA interface [nucleotide binding]; other site 886377002769 IHF dimer interface [polypeptide binding]; other site 886377002770 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 886377002771 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 886377002772 homodimer interface [polypeptide binding]; other site 886377002773 oligonucleotide binding site [chemical binding]; other site 886377002774 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 886377002775 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 886377002776 RecX family; Region: RecX; cl00936 886377002777 JmjC domain, hydroxylase; Region: JmjC; cl15814 886377002779 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377002780 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 886377002781 N-terminal plug; other site 886377002782 ligand-binding site [chemical binding]; other site 886377002783 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 886377002784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377002785 DNA-binding site [nucleotide binding]; DNA binding site 886377002786 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 886377002787 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002788 homodimer interface [polypeptide binding]; other site 886377002789 catalytic residue [active] 886377002790 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002791 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 886377002792 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 886377002793 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 886377002795 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 886377002796 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 886377002797 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 886377002798 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377002799 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 886377002800 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377002801 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; cl12031 886377002802 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 886377002803 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 886377002804 tetramerization interface [polypeptide binding]; other site 886377002805 active site 886377002806 Pantoate-beta-alanine ligase; Region: PanC; cd00560 886377002807 pantoate--beta-alanine ligase; Region: panC; TIGR00018 886377002808 active site 886377002809 ATP-binding site [chemical binding]; other site 886377002810 pantoate-binding site; other site 886377002811 HXXH motif; other site 886377002812 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 886377002813 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377002814 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 886377002815 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 886377002816 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 886377002817 glutaminase active site [active] 886377002818 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 886377002819 dimer interface [polypeptide binding]; other site 886377002820 active site 886377002821 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 886377002822 dimer interface [polypeptide binding]; other site 886377002823 active site 886377002824 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002825 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002826 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; cl00284 886377002827 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; cl00284 886377002828 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 886377002829 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 886377002830 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 886377002831 alpha subunit interaction interface [polypeptide binding]; other site 886377002832 Walker A motif; other site 886377002833 ATP binding site [chemical binding]; other site 886377002834 Walker B motif; other site 886377002835 inhibitor binding site; inhibition site 886377002836 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 886377002837 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 886377002838 DNA repair protein RadA; Provisional; Region: PRK11823 886377002839 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 886377002840 Walker A motif/ATP binding site; other site 886377002841 ATP binding site [chemical binding]; other site 886377002842 Walker B motif; other site 886377002843 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 886377002844 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 886377002845 Trp docking motif [polypeptide binding]; other site 886377002846 putative active site [active] 886377002847 Cytochrome c; Region: Cytochrom_C; cl11414 886377002848 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 886377002849 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 886377002850 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 886377002851 active site 886377002852 catalytic tetrad [active] 886377002853 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377002854 putative catalytic site [active] 886377002855 putative metal binding site [ion binding]; other site 886377002856 putative phosphate binding site [ion binding]; other site 886377002857 Isochorismatase family; Region: Isochorismatase; pfam00857 886377002858 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 886377002859 catalytic triad [active] 886377002860 conserved cis-peptide bond; other site 886377002861 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377002862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377002863 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377002864 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377002865 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 886377002866 N-terminal plug; other site 886377002867 ligand-binding site [chemical binding]; other site 886377002868 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 886377002869 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 886377002870 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 886377002871 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 886377002872 Potassium binding sites [ion binding]; other site 886377002873 Cesium cation binding sites [ion binding]; other site 886377002874 glycyl-tRNA synthetase; Provisional; Region: PRK04173 886377002875 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 attaches...; Region: class_II_aaRS-like_core; cl00268 886377002876 motif 1; other site 886377002877 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 886377002878 active site 886377002879 motif 2; other site 886377002880 motif 3; other site 886377002881 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 886377002882 anticodon binding site; other site 886377002883 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 886377002884 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377002885 active site 886377002886 Bacterial Ig-like domain; Region: Big_5; cl01012 886377002887 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 886377002888 Predicted amidohydrolase [General function prediction only]; Region: COG0388 886377002889 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 886377002890 putative active site [active] 886377002891 catalytic triad [active] 886377002892 dimer interface [polypeptide binding]; other site 886377002893 multimer interface [polypeptide binding]; other site 886377002894 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 886377002895 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 886377002896 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 886377002897 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 886377002898 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 886377002899 heme binding site [chemical binding]; other site 886377002900 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 886377002901 DinB superfamily; Region: DinB_2; pfam12867 886377002902 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377002903 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 886377002904 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002905 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; cl00284 886377002906 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377002907 putative catalytic site [active] 886377002908 putative metal binding site [ion binding]; other site 886377002909 putative phosphate binding site [ion binding]; other site 886377002910 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002911 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002912 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; cl00284 886377002913 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; cl00284 886377002914 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 886377002915 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 886377002916 active site 886377002917 dimer interface [polypeptide binding]; other site 886377002918 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 886377002919 dimer interface [polypeptide binding]; other site 886377002920 active site 886377002921 putative peptidase; Provisional; Region: PRK11649 886377002922 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 886377002923 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 886377002924 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 886377002925 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 886377002926 active site 886377002927 nucleophile elbow; other site 886377002928 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 886377002929 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 886377002930 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377002931 GIY-YIG motif/motif A; other site 886377002932 active site 886377002933 catalytic site [active] 886377002934 putative DNA binding site [nucleotide binding]; other site 886377002935 metal binding site [ion binding]; metal-binding site 886377002936 UvrB/uvrC motif; Region: UVR; pfam02151 886377002937 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 886377002938 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 886377002939 DNA binding site [nucleotide binding] 886377002940 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 886377002941 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 886377002942 lipoprotein signal peptidase; Provisional; Region: PRK14787 886377002943 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 886377002944 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 886377002945 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 886377002946 HIGH motif; other site 886377002947 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002948 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377002949 active site 886377002950 KMSKS motif; other site 886377002951 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 886377002952 tRNA binding surface [nucleotide binding]; other site 886377002953 anticodon binding site; other site 886377002954 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 886377002955 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002956 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 886377002957 N-terminal plug; other site 886377002958 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 886377002959 ligand-binding site [chemical binding]; other site 886377002960 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 886377002961 Recombination protein O N terminal; Region: RecO_N; cl15812 886377002962 Recombination protein O C terminal; Region: RecO_C; pfam02565 886377002963 glutamate dehydrogenase; Provisional; Region: PRK09414 886377002964 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 886377002965 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 886377002966 NAD(P) binding site [chemical binding]; other site 886377002967 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 886377002968 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 886377002969 homodimer interface [polypeptide binding]; other site 886377002970 substrate-cofactor binding pocket; other site 886377002971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377002972 catalytic residue [active] 886377002973 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 886377002974 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 886377002975 DinB superfamily; Region: DinB_2; pfam12867 886377002976 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 886377002977 ArsC family; Region: ArsC; pfam03960 886377002978 catalytic residue [active] 886377002979 EamA-like transporter family; Region: EamA; cl01037 886377002980 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 886377002981 EamA-like transporter family; Region: EamA; cl01037 886377002982 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 886377002983 catalytic residues [active] 886377002984 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377002985 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377002986 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377002987 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 886377002988 active site 886377002989 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 886377002990 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 886377002991 FMN binding site [chemical binding]; other site 886377002992 substrate binding site [chemical binding]; other site 886377002993 putative catalytic residue [active] 886377002994 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 886377002995 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; cl12031 886377002996 Cytochrome c; Region: Cytochrom_C; cl11414 886377002997 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; cl00161 886377002998 META domain; Region: META; cl01245 886377002999 Predicted membrane protein [Function unknown]; Region: COG3650 886377003000 META domain; Region: META; cl01245 886377003001 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 886377003002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003003 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 886377003004 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377003005 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003006 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003007 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003008 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003009 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 886377003010 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 886377003011 Colicin V production protein; Region: Colicin_V; cl00567 886377003012 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 886377003013 Cupin domain; Region: Cupin_2; cl09118 886377003014 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 886377003015 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 886377003016 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 886377003017 tetrameric interface [polypeptide binding]; other site 886377003018 NAD binding site [chemical binding]; other site 886377003019 catalytic residues [active] 886377003020 Uncharacterized conserved protein [Function unknown]; Region: COG3743 886377003021 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 886377003022 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 886377003023 homodimer interface [polypeptide binding]; other site 886377003024 putative substrate binding pocket [chemical binding]; other site 886377003025 diiron center [ion binding]; other site 886377003026 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377003027 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 886377003028 active site 886377003029 metal binding site [ion binding]; metal-binding site 886377003030 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 886377003031 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 886377003032 putative substrate binding site [chemical binding]; other site 886377003033 putative ATP binding site [chemical binding]; other site 886377003034 Divergent AAA domain; Region: AAA_4; pfam04326 886377003035 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 886377003036 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 886377003037 putative NAD(P) binding site [chemical binding]; other site 886377003038 homotetramer interface [polypeptide binding]; other site 886377003039 homodimer interface [polypeptide binding]; other site 886377003040 active site 886377003041 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 886377003042 active site 886377003043 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377003044 catalytic tetrad [active] 886377003045 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377003046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377003047 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377003048 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 886377003049 metal ion-dependent adhesion site (MIDAS); other site 886377003050 Aerotolerance regulator N-terminal; Region: BatA; cl06567 886377003051 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 886377003052 metal ion-dependent adhesion site (MIDAS); other site 886377003053 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377003054 metal ion-dependent adhesion site (MIDAS); other site 886377003055 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 886377003056 binding surface 886377003057 TPR motif; other site 886377003058 TPR repeat; Region: TPR_11; pfam13414 886377003059 Oxygen tolerance; Region: BatD; pfam13584 886377003060 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 886377003061 binding surface 886377003062 TPR repeat; Region: TPR_11; pfam13414 886377003063 TPR motif; other site 886377003064 Bacterial SH3 domain; Region: SH3_3; cl02551 886377003065 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377003066 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377003067 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 886377003068 active site clefts [active] 886377003069 zinc binding site [ion binding]; other site 886377003070 dimer interface [polypeptide binding]; other site 886377003071 high affinity sulphate transporter 1; Region: sulP; TIGR00815 886377003072 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377003073 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377003074 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 886377003075 Ceramidase; Region: Ceramidase; pfam05875 886377003076 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 886377003077 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 886377003078 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 886377003079 dimer interface [polypeptide binding]; other site 886377003080 motif 1; other site 886377003081 active site 886377003082 motif 2; other site 886377003083 motif 3; other site 886377003084 Predicted transcriptional regulators [Transcription]; Region: COG1510 886377003085 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377003086 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377003087 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377003088 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 886377003089 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377003090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377003091 Helix-turn-helix domains; Region: HTH; cl00088 886377003092 allantoate amidohydrolase; Reviewed; Region: PRK09290 886377003093 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 886377003094 active site 886377003095 metal binding site [ion binding]; metal-binding site 886377003096 dimer interface [polypeptide binding]; other site 886377003097 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 886377003098 non-specific DNA binding site [nucleotide binding]; other site 886377003099 salt bridge; other site 886377003100 sequence-specific DNA binding site [nucleotide binding]; other site 886377003102 YhhN-like protein; Region: YhhN; cl01505 886377003103 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 886377003104 putative active site [active] 886377003105 putative metal binding residues [ion binding]; other site 886377003106 signature motif; other site 886377003107 putative dimer interface [polypeptide binding]; other site 886377003108 putative phosphate binding site [ion binding]; other site 886377003109 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 886377003110 active site 886377003111 DNA polymerase IV; Validated; Region: PRK02406 886377003112 DNA binding site [nucleotide binding] 886377003113 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377003114 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377003115 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377003116 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 886377003117 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 886377003118 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 886377003119 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377003120 Helix-turn-helix domains; Region: HTH; cl00088 886377003121 pyruvate kinase; Provisional; Region: PRK05826 886377003122 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; cl09155 886377003123 domain interfaces; other site 886377003124 active site 886377003125 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 886377003126 dimerization interface [polypeptide binding]; other site 886377003127 active site 886377003128 metal binding site [ion binding]; metal-binding site 886377003129 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; cl00054 886377003130 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 886377003131 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 886377003132 dimer interface [polypeptide binding]; other site 886377003133 active site 886377003134 Phosphopantetheine attachment site; Region: PP-binding; cl09936 886377003135 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 886377003136 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 886377003137 active site 886377003138 substrate binding site [chemical binding]; other site 886377003139 cosubstrate binding site; other site 886377003140 catalytic site [active] 886377003141 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 886377003142 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 886377003143 active site 886377003144 RNA/DNA hybrid binding site [nucleotide binding]; other site 886377003145 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 886377003146 substrate binding site [chemical binding]; other site 886377003147 ATP binding site [chemical binding]; other site 886377003148 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 886377003149 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 886377003150 active site 886377003151 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377003152 active site 886377003153 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 886377003154 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 886377003155 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 886377003156 putative recombination protein RecB; Provisional; Region: PRK13909 886377003157 Family description; Region: UvrD_C_2; cl15862 886377003158 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 886377003159 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 886377003160 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 886377003161 substrate-cofactor binding pocket; other site 886377003162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377003163 catalytic residue [active] 886377003164 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377003165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377003166 ligand binding site [chemical binding]; other site 886377003167 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 886377003168 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 886377003169 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 886377003170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003171 NAD(P) binding site [chemical binding]; other site 886377003172 active site 886377003173 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 886377003174 active site 886377003175 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377003176 metal binding site [ion binding]; metal-binding site 886377003177 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377003178 active site 886377003179 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 886377003180 Ligand Binding Site [chemical binding]; other site 886377003181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377003182 Coenzyme A binding pocket [chemical binding]; other site 886377003183 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377003184 MatE; Region: MatE; cl10513 886377003185 MatE; Region: MatE; cl10513 886377003186 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 886377003187 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 886377003188 substrate binding site [chemical binding]; other site 886377003189 oxyanion hole (OAH) forming residues; other site 886377003190 trimer interface [polypeptide binding]; other site 886377003191 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 886377003192 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377003193 putative active site [active] 886377003194 putative metal binding site [ion binding]; other site 886377003195 enterobactin exporter EntS; Provisional; Region: PRK10489 886377003196 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 886377003197 putative substrate translocation pore; other site 886377003198 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 886377003199 DHH family; Region: DHH; pfam01368 886377003200 DHHA1 domain; Region: DHHA1; pfam02272 886377003201 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377003202 GIY-YIG motif/motif A; other site 886377003203 putative active site [active] 886377003204 putative metal binding site [ion binding]; other site 886377003205 OsmC-like protein; Region: OsmC; cl00767 886377003206 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 886377003207 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377003208 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 886377003209 putative uracil binding site [chemical binding]; other site 886377003210 putative active site [active] 886377003211 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 886377003212 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377003213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003214 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377003215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003216 hypothetical protein; Provisional; Region: PRK07206 886377003217 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 886377003218 non-specific DNA binding site [nucleotide binding]; other site 886377003219 salt bridge; other site 886377003220 sequence-specific DNA binding site [nucleotide binding]; other site 886377003221 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 886377003222 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 886377003223 thymidine kinase; Provisional; Region: PRK04296 886377003224 alanine racemase; Reviewed; Region: alr; PRK00053 886377003225 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 886377003226 active site 886377003227 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377003228 dimer interface [polypeptide binding]; other site 886377003229 substrate binding site [chemical binding]; other site 886377003230 catalytic residues [active] 886377003231 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 886377003232 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 886377003233 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 886377003234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003235 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 886377003236 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 886377003237 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 886377003238 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; cl12031 886377003239 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 886377003240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377003241 Walker A/P-loop; other site 886377003242 ATP binding site [chemical binding]; other site 886377003243 Q-loop/lid; other site 886377003244 ABC transporter signature motif; other site 886377003245 Walker B; other site 886377003246 D-loop; other site 886377003247 H-loop/switch region; other site 886377003248 RF-1 domain; Region: RF-1; cl02875 886377003249 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377003250 active site 886377003251 Zn binding site [ion binding]; other site 886377003252 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 886377003253 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377003254 Sodium:solute symporter family; Region: SSF; cl00456 886377003255 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 886377003256 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 886377003257 Lumazine binding domain; Region: Lum_binding; pfam00677 886377003258 Lumazine binding domain; Region: Lum_binding; pfam00677 886377003259 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 886377003260 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 886377003261 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 886377003262 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 886377003263 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 886377003264 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 886377003265 dimer interface [polypeptide binding]; other site 886377003266 active site 886377003267 CoA binding pocket [chemical binding]; other site 886377003268 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 886377003269 carboxyltransferase (CT) interaction site; other site 886377003270 biotinylation site [posttranslational modification]; other site 886377003271 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 886377003272 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 886377003273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377003274 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 886377003275 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 886377003276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003277 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377003278 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377003279 Walker A/P-loop; other site 886377003280 ATP binding site [chemical binding]; other site 886377003281 Q-loop/lid; other site 886377003282 ABC transporter signature motif; other site 886377003283 Walker B; other site 886377003284 D-loop; other site 886377003285 H-loop/switch region; other site 886377003286 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 886377003287 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003288 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003289 FtsX-like permease family; Region: FtsX; cl15850 886377003290 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003291 FtsX-like permease family; Region: FtsX; cl15850 886377003292 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003293 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003294 FtsX-like permease family; Region: FtsX; cl15850 886377003295 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003296 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003297 FtsX-like permease family; Region: FtsX; cl15850 886377003298 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003299 FtsX-like permease family; Region: FtsX; cl15850 886377003300 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003301 FtsX-like permease family; Region: FtsX; cl15850 886377003302 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377003303 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003304 FtsX-like permease family; Region: FtsX; cl15850 886377003305 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003306 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 886377003307 FtsX-like permease family; Region: FtsX; cl15850 886377003308 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003309 FtsX-like permease family; Region: FtsX; cl15850 886377003310 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377003311 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377003312 Walker A/P-loop; other site 886377003313 ATP binding site [chemical binding]; other site 886377003314 Q-loop/lid; other site 886377003315 ABC transporter signature motif; other site 886377003316 Walker B; other site 886377003317 D-loop; other site 886377003318 H-loop/switch region; other site 886377003319 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377003320 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377003321 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377003322 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377003323 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377003324 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 886377003325 active site 886377003326 phosphorylation site [posttranslational modification] 886377003327 intermolecular recognition site; other site 886377003328 dimerization interface [polypeptide binding]; other site 886377003329 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 886377003330 Walker A motif; other site 886377003331 ATP binding site [chemical binding]; other site 886377003332 Walker B motif; other site 886377003333 arginine finger; other site 886377003334 Helix-turn-helix domains; Region: HTH; cl00088 886377003335 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 886377003336 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377003337 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 886377003338 ATP binding site [chemical binding]; other site 886377003339 Mg2+ binding site [ion binding]; other site 886377003340 G-X-G motif; other site 886377003341 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377003342 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; cl12031 886377003343 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377003344 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 886377003345 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 886377003346 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377003347 active site 886377003348 phosphorylation site [posttranslational modification] 886377003349 intermolecular recognition site; other site 886377003350 dimerization interface [polypeptide binding]; other site 886377003351 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 886377003352 Walker A motif; other site 886377003353 ATP binding site [chemical binding]; other site 886377003354 Walker B motif; other site 886377003355 arginine finger; other site 886377003356 Helix-turn-helix domains; Region: HTH; cl00088 886377003357 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 886377003358 dimer interface [polypeptide binding]; other site 886377003359 phosphorylation site [posttranslational modification] 886377003360 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 886377003361 ATP binding site [chemical binding]; other site 886377003362 Mg2+ binding site [ion binding]; other site 886377003363 G-X-G motif; other site 886377003364 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 886377003365 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 886377003366 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; cl12031 886377003367 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377003368 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 886377003369 dimer interface [polypeptide binding]; other site 886377003370 substrate binding site [chemical binding]; other site 886377003371 metal binding site [ion binding]; metal-binding site 886377003372 Ribosome-binding factor A; Region: RBFA; cl00542 886377003373 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377003374 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377003375 FtsX-like permease family; Region: FtsX; cl15850 886377003376 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 886377003377 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 886377003378 FMN binding site [chemical binding]; other site 886377003379 active site 886377003380 catalytic residues [active] 886377003381 substrate binding site [chemical binding]; other site 886377003382 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377003383 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; cl00284 886377003384 GTP-binding protein LepA; Provisional; Region: PRK05433 886377003385 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 886377003386 G1 box; other site 886377003387 putative GEF interaction site [polypeptide binding]; other site 886377003388 GTP/Mg2+ binding site [chemical binding]; other site 886377003389 Switch I region; other site 886377003390 G2 box; other site 886377003391 G3 box; other site 886377003392 Switch II region; other site 886377003393 G4 box; other site 886377003394 G5 box; other site 886377003395 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 886377003396 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 886377003397 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 886377003398 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 886377003399 transmembrane helices; other site 886377003400 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377003401 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; cl15357 886377003402 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; cl15357 886377003403 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 886377003404 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 886377003405 potassium/proton antiporter; Reviewed; Region: PRK05326 886377003406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003407 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377003408 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 886377003409 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 886377003410 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 886377003411 active site 886377003412 catalytic triad [active] 886377003413 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 886377003414 Zn binding site [ion binding]; other site 886377003416 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377003417 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377003418 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377003419 Ribonuclease P; Region: Ribonuclease_P; cl00457 886377003420 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377003421 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 886377003422 protein binding site [polypeptide binding]; other site 886377003423 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377003424 Catalytic dyad [active] 886377003425 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 886377003426 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 886377003427 GDYXXLXY protein; Region: GDYXXLXY; cl02066 886377003428 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; cl16911 886377003429 cofactor binding site; other site 886377003430 DNA binding site [nucleotide binding] 886377003431 substrate interaction site [chemical binding]; other site 886377003432 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377003433 Cation efflux family; Region: Cation_efflux; cl00316 886377003434 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 886377003435 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 886377003436 ribonuclease R; Region: RNase_R; TIGR02063 886377003437 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 886377003438 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 886377003439 RNB domain; Region: RNB; pfam00773 886377003440 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 play an important...; Region: S1_RNase_R; cd04471 886377003441 RNA binding site [nucleotide binding]; other site 886377003442 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377003443 LysE type translocator; Region: LysE; cl00565 886377003444 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377003445 active site 886377003446 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377003447 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377003448 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377003449 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377003450 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377003451 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377003452 Sporulation related domain; Region: SPOR; cl10051 886377003453 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377003454 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 886377003455 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003456 active site 886377003457 HIGH motif; other site 886377003458 nucleotide binding site [chemical binding]; other site 886377003459 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377003460 active site 886377003461 KMSKS motif; other site 886377003462 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 886377003463 YtxH-like protein; Region: YtxH; cl02079 886377003464 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 886377003465 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 886377003466 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 886377003467 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 886377003468 active site 886377003469 HIGH motif; other site 886377003470 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 886377003471 active site 886377003472 KMSKS motif; other site 886377003473 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 886377003474 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 886377003475 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 886377003476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003477 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 886377003478 Methyltransferase domain; Region: Methyltransf_31; pfam13847 886377003479 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 886377003480 S-adenosylmethionine binding site [chemical binding]; other site 886377003481 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377003482 Predicted membrane protein [Function unknown]; Region: COG4270 886377003483 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 886377003484 ligand binding site [chemical binding]; other site 886377003485 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 886377003486 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 886377003487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377003488 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 886377003489 Phosphoglycerate kinase; Region: PGK; pfam00162 886377003490 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 886377003491 substrate binding site [chemical binding]; other site 886377003492 hinge regions; other site 886377003493 ADP binding site [chemical binding]; other site 886377003494 catalytic site [active] 886377003495 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 catalyze...; Region: LT_GEWL; cd00254 886377003496 N-acetyl-D-glucosamine binding site [chemical binding]; other site 886377003497 catalytic residue [active] 886377003498 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 886377003499 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377003500 putative peptidoglycan binding site; other site 886377003501 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377003502 putative peptidoglycan binding site; other site 886377003503 translocation protein TolB; Provisional; Region: tolB; PRK02889 886377003504 translocation protein TolB; Provisional; Region: tolB; PRK00178 886377003505 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377003506 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377003507 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377003508 ligand binding site [chemical binding]; other site 886377003509 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 886377003510 Peptidase family M23; Region: Peptidase_M23; pfam01551 886377003511 GH3 auxin-responsive promoter; Region: GH3; cl04006 886377003512 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 886377003513 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 886377003514 NADP binding site [chemical binding]; other site 886377003515 active site 886377003516 putative substrate binding site [chemical binding]; other site 886377003517 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 886377003518 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 886377003519 NAD binding site [chemical binding]; other site 886377003520 substrate binding site [chemical binding]; other site 886377003521 homodimer interface [polypeptide binding]; other site 886377003522 active site 886377003523 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 886377003524 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 886377003525 substrate binding site; other site 886377003526 tetramer interface; other site 886377003527 Cupin domain; Region: Cupin_2; cl09118 886377003528 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 886377003529 active site 886377003530 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 886377003531 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 886377003532 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 886377003533 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 886377003534 ligand-binding site [chemical binding]; other site 886377003535 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 886377003536 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 886377003537 Active Sites [active] 886377003538 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 886377003539 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 886377003540 CysD dimerization site [polypeptide binding]; other site 886377003541 G1 box; other site 886377003542 putative GEF interaction site [polypeptide binding]; other site 886377003543 GTP/Mg2+ binding site [chemical binding]; other site 886377003544 Switch I region; other site 886377003545 G2 box; other site 886377003546 G3 box; other site 886377003547 Switch II region; other site 886377003548 G4 box; other site 886377003549 G5 box; other site 886377003550 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 886377003551 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 886377003553 MatE; Region: MatE; cl10513 886377003554 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 886377003555 active site 886377003556 substrate binding site [chemical binding]; other site 886377003557 trimer interface [polypeptide binding]; other site 886377003558 CoA binding site [chemical binding]; other site 886377003559 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 886377003560 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 886377003561 O-Antigen ligase; Region: Wzy_C; cl04850 886377003562 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 886377003563 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 886377003564 active site 886377003565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377003566 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 886377003567 putative ADP-binding pocket [chemical binding]; other site 886377003568 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 886377003569 Bacterial sugar transferase; Region: Bac_transf; cl00939 886377003570 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 886377003571 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377003572 NAD binding site [chemical binding]; other site 886377003573 putative substrate binding site 2 [chemical binding]; other site 886377003574 putative substrate binding site 1 [chemical binding]; other site 886377003575 active site 886377003576 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 886377003577 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 886377003578 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377003579 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 886377003580 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 886377003581 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 886377003582 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 886377003583 putative active site [active] 886377003584 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 886377003585 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 886377003586 FeS/SAM binding site; other site 886377003587 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 886377003588 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377003589 Fasciclin domain; Region: Fasciclin; cl02663 886377003590 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 886377003591 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 886377003592 active site 886377003593 nucleophile elbow; other site 886377003594 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 886377003595 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 886377003596 FAD binding pocket [chemical binding]; other site 886377003597 FAD binding motif [chemical binding]; other site 886377003598 phosphate binding motif [ion binding]; other site 886377003599 beta-alpha-beta structure motif; other site 886377003600 NAD(p) ribose binding residues [chemical binding]; other site 886377003601 NAD binding pocket [chemical binding]; other site 886377003602 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 886377003603 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 886377003604 catalytic loop [active] 886377003605 iron binding site [ion binding]; other site 886377003606 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 886377003607 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 886377003608 Walker A/P-loop; other site 886377003609 ATP binding site [chemical binding]; other site 886377003610 Q-loop/lid; other site 886377003611 ABC transporter signature motif; other site 886377003612 Walker B; other site 886377003613 D-loop; other site 886377003614 H-loop/switch region; other site 886377003615 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003616 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 886377003617 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 886377003618 ATP synthase A chain; Region: ATP-synt_A; cl00413 886377003619 ATP synthase subunit C; Region: ATP-synt_C; cl00466 886377003620 Plant ATP synthase F0; Region: YMF19; cl07975 886377003621 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 886377003622 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 886377003623 Plant ATP synthase F0; Region: YMF19; cl07975 886377003624 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 886377003625 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 886377003626 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 886377003627 beta subunit interaction interface [polypeptide binding]; other site 886377003628 Walker A motif; other site 886377003629 ATP binding site [chemical binding]; other site 886377003630 Walker B motif; other site 886377003631 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 886377003632 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377003633 ATP synthase; Region: ATP-synt; cl00365 886377003634 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 886377003635 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 886377003636 MatE; Region: MatE; cl10513 886377003637 MatE; Region: MatE; cl10513 886377003638 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 886377003639 trimer interface [polypeptide binding]; other site 886377003640 active site 886377003641 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 886377003642 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 886377003643 active site 886377003644 Substrate binding site; other site 886377003645 Mg++ binding site; other site 886377003646 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 886377003647 putative trimer interface [polypeptide binding]; other site 886377003648 putative CoA binding site [chemical binding]; other site 886377003649 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 886377003650 binding surface 886377003651 TPR motif; other site 886377003652 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 886377003653 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 886377003654 Protein of unknown function (DUF837); Region: DUF837; pfam05769 886377003655 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 886377003656 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 886377003657 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 886377003658 active site 886377003659 catalytic tetrad [active] 886377003660 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 886377003661 Sporulation related domain; Region: SPOR; cl10051 886377003662 Hef nuclease; Provisional; Region: PRK13766 886377003663 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 886377003664 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 886377003665 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_5; cd03408 886377003666 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 886377003667 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 886377003668 homodimer interface [polypeptide binding]; other site 886377003669 homotetramer interface [polypeptide binding]; other site 886377003670 active site pocket [active] 886377003671 cleavage site 886377003672 DinB superfamily; Region: DinB_2; pfam12867 886377003673 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377003674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003675 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377003676 VPS10 domain; Region: VPS10; smart00602 886377003677 VPS10 domain; Region: VPS10; smart00602 886377003678 Snf7; Region: Snf7; cl02305 886377003679 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377003680 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; cl01922 886377003681 Asp-box motif; other site 886377003682 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377003683 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377003684 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 886377003685 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 886377003686 additional DNA contacts [nucleotide binding]; other site 886377003687 mismatch recognition site; other site 886377003688 active site 886377003689 zinc binding site [ion binding]; other site 886377003690 DNA intercalation site [nucleotide binding]; other site 886377003691 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 886377003692 non-specific DNA binding site [nucleotide binding]; other site 886377003693 salt bridge; other site 886377003694 sequence-specific DNA binding site [nucleotide binding]; other site 886377003695 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 886377003696 Catalytic site [active] 886377003697 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377003698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377003699 Coenzyme A binding pocket [chemical binding]; other site 886377003700 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 886377003701 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 886377003702 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 886377003703 Transglycosylase; Region: Transgly; cl07896 886377003704 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377003705 GldH lipoprotein; Region: GldH_lipo; cl11905 886377003706 PSP1 C-terminal conserved region; Region: PSP1; cl00770 886377003707 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 886377003708 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 886377003709 active site residue [active] 886377003710 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 886377003711 protein RecA; Region: tigrfam_recA; TIGR02012 886377003712 hexamer interface [polypeptide binding]; other site 886377003713 Walker A motif; other site 886377003714 ATP binding site [chemical binding]; other site 886377003715 Walker B motif; other site 886377003716 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377003717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377003718 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 886377003719 DNA binding residues [nucleotide binding] 886377003720 membrane-attack complex/perforin (MACPF) Superfamily; Provisional; Region: PTZ00482 886377003721 GAF domain; Region: GAF_2; pfam13185 886377003722 GAF domain; Region: GAF; cl15785 886377003723 Histidine kinase; Region: His_kinase; pfam06580 886377003724 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 886377003725 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377003726 Histidine kinase; Region: His_kinase; pfam06580 886377003727 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377003728 putative acyl-acceptor binding pocket; other site 886377003729 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 886377003730 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 886377003731 active site 886377003732 HIGH motif; other site 886377003733 dimer interface [polypeptide binding]; other site 886377003734 KMSKS motif; other site 886377003735 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 886377003736 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 886377003737 FeS/SAM binding site; other site 886377003738 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 886377003739 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 886377003740 substrate binding site [chemical binding]; other site 886377003741 oxyanion hole (OAH) forming residues; other site 886377003742 trimer interface [polypeptide binding]; other site 886377003743 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 886377003744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377003745 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 886377003746 dimer interface [polypeptide binding]; other site 886377003747 phosphorylation site [posttranslational modification] 886377003748 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 886377003749 ATP binding site [chemical binding]; other site 886377003750 Mg2+ binding site [ion binding]; other site 886377003751 G-X-G motif; other site 886377003752 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 886377003753 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 886377003754 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 886377003755 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377003756 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 886377003757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003758 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 886377003759 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 886377003760 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 886377003761 putative Iron-sulfur protein interface [polypeptide binding]; other site 886377003762 proximal heme binding site [chemical binding]; other site 886377003763 distal heme binding site [chemical binding]; other site 886377003764 putative dimer interface [polypeptide binding]; other site 886377003765 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 886377003766 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377003767 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 886377003768 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 886377003769 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 886377003770 proline aminopeptidase P II; Provisional; Region: PRK10879 886377003771 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 886377003772 active site 886377003773 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377003774 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377003775 Cation efflux family; Region: Cation_efflux; cl00316 886377003776 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 886377003777 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 886377003778 S-adenosylmethionine binding site [chemical binding]; other site 886377003779 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 886377003780 thiamine-monophosphate kinase; Region: thiL; TIGR01379 886377003781 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 886377003782 ATP binding site [chemical binding]; other site 886377003783 dimerization interface [polypeptide binding]; other site 886377003784 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 886377003785 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 886377003786 putative ABC transporter; Region: ycf24; CHL00085 886377003787 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 886377003788 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 886377003789 Walker A/P-loop; other site 886377003790 ATP binding site [chemical binding]; other site 886377003791 Q-loop/lid; other site 886377003792 ABC transporter signature motif; other site 886377003793 Walker B; other site 886377003794 D-loop; other site 886377003795 H-loop/switch region; other site 886377003796 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 886377003797 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 886377003798 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 886377003799 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377003800 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 886377003801 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 886377003802 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377003803 catalytic residue [active] 886377003804 Fe-S metabolism associated domain; Region: SufE; cl00951 886377003805 Domain of unknown function DUF59; Region: DUF59; cl00941 886377003806 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 886377003807 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 886377003808 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 886377003809 binding surface 886377003810 TPR motif; other site 886377003811 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003812 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 886377003813 binding surface 886377003814 TPR motif; other site 886377003815 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003816 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003817 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 886377003818 dimer interface [polypeptide binding]; other site 886377003819 phosphorylation site [posttranslational modification] 886377003820 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 886377003821 ATP binding site [chemical binding]; other site 886377003822 Mg2+ binding site [ion binding]; other site 886377003823 G-X-G motif; other site 886377003824 Response regulator receiver domain; Region: Response_reg; pfam00072 886377003825 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 886377003826 active site 886377003827 phosphorylation site [posttranslational modification] 886377003828 intermolecular recognition site; other site 886377003829 dimerization interface [polypeptide binding]; other site 886377003830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377003831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003832 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377003833 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377003834 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 886377003835 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 886377003836 HflX GTPase family; Region: HflX; cd01878 886377003837 G1 box; other site 886377003838 GTP/Mg2+ binding site [chemical binding]; other site 886377003839 Switch I region; other site 886377003840 G2 box; other site 886377003841 G3 box; other site 886377003842 Switch II region; other site 886377003843 G4 box; other site 886377003844 G5 box; other site 886377003845 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377003846 putative catalytic site [active] 886377003847 putative metal binding site [ion binding]; other site 886377003848 putative phosphate binding site [ion binding]; other site 886377003849 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 886377003850 active site 886377003851 catalytic triad [active] 886377003852 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 886377003853 Interdomain contacts; other site 886377003854 Cytokine receptor motif; other site 886377003855 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377003856 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 886377003857 active site 886377003858 catalytic site [active] 886377003859 substrate binding site [chemical binding]; other site 886377003860 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 886377003861 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 886377003862 DNA binding site [nucleotide binding] 886377003863 active site 886377003864 Domain of unknown function DUF21; Region: DUF21; pfam01595 886377003865 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 886377003866 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377003867 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377003868 DNA polymerase III PolC; Validated; Region: polC; PRK00448 886377003869 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 886377003870 dimer interface [polypeptide binding]; other site 886377003871 allosteric magnesium binding site [ion binding]; other site 886377003872 active site 886377003873 aspartate-rich active site metal binding site; other site 886377003874 Schiff base residues; other site 886377003875 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 886377003876 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; cl16911 886377003877 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 886377003878 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 886377003879 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 886377003880 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 886377003881 substrate binding site [chemical binding]; other site 886377003882 active site 886377003883 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 886377003884 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 886377003885 active site 886377003886 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 886377003887 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; cl03189 886377003888 domain interfaces; other site 886377003889 active site 886377003890 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 886377003891 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 886377003892 tRNA; other site 886377003893 putative tRNA binding site [nucleotide binding]; other site 886377003894 putative NADP binding site [chemical binding]; other site 886377003895 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 886377003896 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377003897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377003898 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 886377003899 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 886377003900 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 886377003901 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377003902 ferrochelatase; Reviewed; Region: hemH; PRK00035 886377003903 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 886377003904 C-terminal domain interface [polypeptide binding]; other site 886377003905 active site 886377003906 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 886377003907 active site 886377003908 N-terminal domain interface [polypeptide binding]; other site 886377003909 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377003910 MatE; Region: MatE; cl10513 886377003911 MatE; Region: MatE; cl10513 886377003912 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 886377003913 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377003914 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; cl12031 886377003915 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377003916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003917 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 886377003918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 886377003919 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377003920 putative acyl-acceptor binding pocket; other site 886377003921 Disulphide isomerase; Region: Disulph_isomer; pfam06491 886377003922 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 886377003923 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 886377003924 putative metal binding site [ion binding]; other site 886377003925 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 886377003926 HSP70 interaction site [polypeptide binding]; other site 886377003927 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377003928 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377003929 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377003930 HupE / UreJ protein; Region: HupE_UreJ; cl01011 886377003931 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 886377003932 catalytic motif [active] 886377003933 Zn binding site [ion binding]; other site 886377003934 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 886377003935 protein binding site [polypeptide binding]; other site 886377003936 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 886377003937 Catalytic dyad [active] 886377003938 MarC family integral membrane protein; Region: MarC; cl00919 886377003939 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 886377003940 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003941 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 886377003942 binding surface 886377003943 TPR motif; other site 886377003944 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003945 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377003946 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 886377003947 Histidine kinase; Region: His_kinase; pfam06580 886377003948 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377003949 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 886377003950 active site 886377003951 phosphorylation site [posttranslational modification] 886377003952 intermolecular recognition site; other site 886377003953 dimerization interface [polypeptide binding]; other site 886377003954 LytTr DNA-binding domain; Region: LytTR; cl04498 886377003955 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377003956 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377003957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003958 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377003959 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 886377003960 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377003961 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377003962 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 886377003963 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 886377003964 putative substrate translocation pore; other site 886377003965 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 886377003966 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377003967 putative substrate translocation pore; other site 886377003968 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377003969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377003970 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377003971 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 886377003972 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 886377003973 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 886377003974 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377003975 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377003976 hypothetical protein; Provisional; Region: PRK11820 886377003977 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 886377003978 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 886377003979 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 886377003980 Guanylate kinase; Region: Guanylate_kin; pfam00625 886377003981 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 886377003982 catalytic site [active] 886377003983 G-X2-G-X-G-K; other site 886377003984 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 886377003985 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 886377003986 active site 886377003987 (T/H)XGH motif; other site 886377003988 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 886377003989 active site 886377003990 Phosphate transporter family; Region: PHO4; cl00396 886377003991 Phosphate transporter family; Region: PHO4; cl00396 886377003992 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 886377003993 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 886377003994 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 886377003995 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 886377003996 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 886377003997 TPP-binding site; other site 886377003998 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 886377003999 PYR/PP interface [polypeptide binding]; other site 886377004000 dimer interface [polypeptide binding]; other site 886377004001 TPP binding site [chemical binding]; other site 886377004002 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377004003 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 886377004004 nucleoside/Zn binding site; other site 886377004005 dimer interface [polypeptide binding]; other site 886377004006 catalytic motif [active] 886377004007 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 protein; Region: CSP_CDS; cd04458 886377004008 DNA-binding site [nucleotide binding]; DNA binding site 886377004009 RNA-binding motif; other site 886377004010 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 886377004011 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 886377004012 Cl- selectivity filter; other site 886377004013 Cl- binding residues [ion binding]; other site 886377004014 pore gating glutamate residue; other site 886377004015 dimer interface [polypeptide binding]; other site 886377004016 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004017 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 886377004018 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 886377004019 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 886377004020 dimer interface [polypeptide binding]; other site 886377004021 anticodon binding site; other site 886377004022 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 the...; Region: AspRS_core; cd00777 886377004023 homodimer interface [polypeptide binding]; other site 886377004024 motif 1; other site 886377004025 active site 886377004026 motif 2; other site 886377004027 GAD domain; Region: GAD; pfam02938 886377004028 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 attaches...; Region: class_II_aaRS-like_core; cl00268 886377004029 active site 886377004030 motif 3; other site 886377004031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004032 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377004033 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004034 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004035 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004036 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377004037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377004038 Helix-turn-helix domains; Region: HTH; cl00088 886377004039 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377004040 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 886377004041 DNA binding residues [nucleotide binding] 886377004042 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 886377004043 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 886377004044 substrate binding pocket [chemical binding]; other site 886377004045 chain length determination region; other site 886377004046 substrate-Mg2+ binding site; other site 886377004047 catalytic residues [active] 886377004048 aspartate-rich region 1; other site 886377004049 active site lid residues [active] 886377004050 aspartate-rich region 2; other site 886377004051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004052 Protein of unknown function DUF86; Region: DUF86; cl01031 886377004053 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 886377004054 active site 886377004055 NTP binding site [chemical binding]; other site 886377004056 metal binding triad [ion binding]; metal-binding site 886377004057 antibiotic binding site [chemical binding]; other site 886377004058 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377004059 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377004060 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 886377004061 N-terminal plug; other site 886377004062 ligand-binding site [chemical binding]; other site 886377004063 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 886377004064 Helix-turn-helix domains; Region: HTH; cl00088 886377004065 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 886377004066 FeoA domain; Region: FeoA; cl00838 886377004067 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 886377004068 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004069 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004070 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377004071 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377004072 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; cl01922 886377004073 Asp-box motif; other site 886377004074 VPS10 domain; Region: VPS10; smart00602 886377004075 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377004076 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 886377004077 classical (c) SDRs; Region: SDR_c; cd05233 886377004078 NAD(P) binding site [chemical binding]; other site 886377004079 active site 886377004080 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 886377004081 Protein of unknown function (DUF423); Region: DUF423; cl01008 886377004082 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 886377004083 Putative zinc-finger; Region: zf-HC2; cl15806 886377004084 HEAT repeats; Region: HEAT_2; pfam13646 886377004085 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377004086 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377004087 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 886377004088 DNA binding residues [nucleotide binding] 886377004089 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 886377004090 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 886377004091 G1 box; other site 886377004092 GTP/Mg2+ binding site [chemical binding]; other site 886377004093 Switch I region; other site 886377004094 G2 box; other site 886377004095 G3 box; other site 886377004096 Switch II region; other site 886377004097 G4 box; other site 886377004098 G5 box; other site 886377004099 Nucleoside recognition; Region: Gate; cl00486 886377004100 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 886377004101 Nucleoside recognition; Region: Gate; cl00486 886377004102 FeoA domain; Region: FeoA; cl00838 886377004103 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 886377004104 Cu(I) binding site [ion binding]; other site 886377004105 zinc metallopeptidase RseP; Provisional; Region: PRK10779 886377004106 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 886377004107 active site 886377004108 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 886377004109 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 886377004110 protein binding site [polypeptide binding]; other site 886377004111 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 886377004112 putative substrate binding region [chemical binding]; other site 886377004114 peroxiredoxin; Provisional; Region: PRK13189 886377004115 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377004116 dimer interface [polypeptide binding]; other site 886377004117 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377004118 catalytic triad [active] 886377004119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377004120 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 886377004121 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 886377004122 active site residue [active] 886377004123 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377004124 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377004125 dimerization interface [polypeptide binding]; other site 886377004126 DPS ferroxidase diiron center [ion binding]; other site 886377004127 ion pore; other site 886377004128 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 886377004129 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 886377004130 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 886377004131 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 886377004132 Response regulator receiver domain; Region: Response_reg; pfam00072 886377004133 active site 886377004134 phosphorylation site [posttranslational modification] 886377004135 intermolecular recognition site; other site 886377004136 dimerization interface [polypeptide binding]; other site 886377004137 Sulphur transport; Region: Sulf_transp; cl01018 886377004138 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 886377004139 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377004140 Protein export membrane protein; Region: SecD_SecF; cl14618 886377004141 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004142 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004143 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004144 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377004145 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 886377004146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004147 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 886377004148 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377004149 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 886377004150 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 886377004151 metal-binding site [ion binding] 886377004152 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 886377004153 active site residue [active] 886377004154 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377004155 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 886377004156 active site residue [active] 886377004157 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 886377004158 active site residue [active] 886377004159 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377004160 high affinity sulphate transporter 1; Region: sulP; TIGR00815 886377004161 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377004162 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 886377004163 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 886377004164 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 886377004165 Sulfatase; Region: Sulfatase; cl10460 886377004166 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 886377004167 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 886377004168 N- and C-terminal domain interface [polypeptide binding]; other site 886377004169 active site 886377004170 MgATP binding site [chemical binding]; other site 886377004171 catalytic site [active] 886377004172 metal binding site [ion binding]; metal-binding site 886377004173 carbohydrate binding site [chemical binding]; other site 886377004174 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 886377004175 putative transporter; Provisional; Region: PRK10484 886377004176 Sodium:solute symporter family; Region: SSF; cl00456 886377004177 two-component response regulator; Provisional; Region: PRK14084 886377004178 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 886377004179 active site 886377004180 phosphorylation site [posttranslational modification] 886377004181 intermolecular recognition site; other site 886377004182 dimerization interface [polypeptide binding]; other site 886377004183 LytTr DNA-binding domain; Region: LytTR; cl04498 886377004184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377004185 Histidine kinase; Region: His_kinase; pfam06580 886377004186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377004187 YceI-like domain; Region: YceI; cl01001 886377004188 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377004189 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377004190 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; cl00284 886377004191 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377004192 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377004193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004194 NAD(P) binding site [chemical binding]; other site 886377004195 active site 886377004196 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 886377004197 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377004198 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 886377004199 NADH(P)-binding; Region: NAD_binding_10; pfam13460 886377004200 putative NAD(P) binding site [chemical binding]; other site 886377004201 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 886377004202 metal binding site [ion binding]; metal-binding site 886377004203 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 886377004204 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004205 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 886377004206 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 886377004207 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 886377004208 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377004209 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; cl01922 886377004210 Asp-box motif; other site 886377004211 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 886377004212 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377004213 Protein of unknown function (DUF541); Region: SIMPL; cl01077 886377004214 Glycerate kinase family; Region: Gly_kinase; cl00841 886377004215 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 886377004216 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377004217 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 886377004218 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 886377004219 dimerization interface [polypeptide binding]; other site 886377004220 DPS ferroxidase diiron center [ion binding]; other site 886377004221 ion pore; other site 886377004222 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 886377004223 dimer interface [polypeptide binding]; other site 886377004224 ssDNA binding site [nucleotide binding]; other site 886377004225 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377004226 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377004227 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 886377004228 PA/protease or protease-like domain interface [polypeptide binding]; other site 886377004229 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377004230 metal binding site [ion binding]; metal-binding site 886377004231 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 886377004232 active site 886377004233 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 886377004234 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 886377004235 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 886377004236 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 886377004237 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 886377004238 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 886377004239 RNA binding site [nucleotide binding]; other site 886377004240 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 886377004241 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 886377004242 active site 886377004243 HIGH motif; other site 886377004244 KMSKS motif; other site 886377004245 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 886377004246 tRNA binding surface [nucleotide binding]; other site 886377004247 anticodon binding site; other site 886377004248 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 886377004249 dimer interface [polypeptide binding]; other site 886377004250 putative tRNA-binding site [nucleotide binding]; other site 886377004251 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 886377004252 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 886377004253 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377004254 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 886377004255 Restriction endonuclease; Region: Mrr_cat; cl00516 886377004256 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377004257 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 886377004258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004259 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377004260 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 886377004261 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 886377004262 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 886377004263 ATP binding site [chemical binding]; other site 886377004264 putative Mg++ binding site [ion binding]; other site 886377004265 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 886377004266 nucleotide binding region [chemical binding]; other site 886377004267 ATP-binding site [chemical binding]; other site 886377004268 TRCF domain; Region: TRCF; cl04088 886377004269 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 886377004270 putative active site [active] 886377004271 putative metal binding site [ion binding]; other site 886377004272 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 886377004273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377004274 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 886377004275 ATP binding site [chemical binding]; other site 886377004276 putative Mg++ binding site [ion binding]; other site 886377004277 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 886377004278 nucleotide binding region [chemical binding]; other site 886377004279 ATP-binding site [chemical binding]; other site 886377004280 DEAD/H associated; Region: DEAD_assoc; pfam08494 886377004281 tellurium resistance terB-like protein; Region: terB_like; cl11965 886377004282 metal binding site [ion binding]; metal-binding site 886377004283 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 886377004284 AMP binding site [chemical binding]; other site 886377004285 metal binding site [ion binding]; metal-binding site 886377004286 active site 886377004287 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 886377004288 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377004289 Coenzyme A binding pocket [chemical binding]; other site 886377004290 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 886377004291 putative catalytic residues [active] 886377004292 nucleotide binding site [chemical binding]; other site 886377004293 aspartate binding site [chemical binding]; other site 886377004294 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377004295 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 886377004296 putative acyl-acceptor binding pocket; other site 886377004297 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377004298 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 886377004299 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377004300 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377004301 Coenzyme A binding pocket [chemical binding]; other site 886377004302 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377004303 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 886377004304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004305 Cupin domain; Region: Cupin_2; cl09118 886377004306 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 886377004307 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 886377004308 MgtE intracellular N domain; Region: MgtE_N; cl15244 886377004309 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 886377004310 Divalent cation transporter; Region: MgtE; cl00786 886377004311 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; cl16911 886377004312 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 886377004313 putative active site pocket [active] 886377004314 dimerization interface [polypeptide binding]; other site 886377004315 putative catalytic residue [active] 886377004316 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 886377004317 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 886377004318 TPR motif; other site 886377004319 binding surface 886377004320 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377004321 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 886377004322 binding surface 886377004323 TPR motif; other site 886377004324 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 886377004325 seryl-tRNA synthetase; Provisional; Region: PRK05431 886377004326 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 886377004327 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 bound...; Region: SerRS_core; cd00770 886377004328 dimer interface [polypeptide binding]; other site 886377004329 active site 886377004330 motif 1; other site 886377004331 motif 2; other site 886377004332 motif 3; other site 886377004333 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 886377004334 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 886377004335 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 886377004336 active site 886377004337 Riboflavin kinase; Region: Flavokinase; cl03312 886377004338 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 886377004339 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 886377004340 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 886377004341 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377004342 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 886377004343 putative active site [active] 886377004344 catalytic residue [active] 886377004345 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 886377004346 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 886377004347 5S rRNA interface [nucleotide binding]; other site 886377004348 CTC domain interface [polypeptide binding]; other site 886377004349 L16 interface [polypeptide binding]; other site 886377004350 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 886377004351 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 886377004352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377004353 active site 886377004354 ATP cone domain; Region: ATP-cone; pfam03477 886377004355 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 886377004356 dimer interface [polypeptide binding]; other site 886377004357 putative radical transfer pathway; other site 886377004358 diiron center [ion binding]; other site 886377004359 tyrosyl radical; other site 886377004360 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 886377004361 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 886377004362 Class I ribonucleotide reductase; Region: RNR_I; cd01679 886377004363 active site 886377004364 dimer interface [polypeptide binding]; other site 886377004365 catalytic residues [active] 886377004366 effector binding site; other site 886377004367 R2 peptide binding site; other site 886377004368 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004369 Uncharacterized conserved protein [Function unknown]; Region: COG1572 886377004370 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004371 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004372 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004373 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004374 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004375 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377004376 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377004377 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377004378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004379 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377004380 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 886377004381 active site 886377004382 phosphorylation site [posttranslational modification] 886377004383 intermolecular recognition site; other site 886377004384 dimerization interface [polypeptide binding]; other site 886377004385 LytTr DNA-binding domain; Region: LytTR; cl04498 886377004386 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377004387 Histidine kinase; Region: His_kinase; pfam06580 886377004388 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377004389 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; cl12031 886377004390 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377004391 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377004392 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377004393 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377004394 ligand binding site [chemical binding]; other site 886377004395 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 886377004396 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 886377004397 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 886377004398 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 886377004399 putative catalytic cysteine [active] 886377004400 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 886377004401 nucleotide binding site [chemical binding]; other site 886377004402 homotetrameric interface [polypeptide binding]; other site 886377004403 putative phosphate binding site [ion binding]; other site 886377004404 putative allosteric binding site; other site 886377004405 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 886377004406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004407 NAD(P) binding pocket [chemical binding]; other site 886377004408 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377004409 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 886377004410 PAS domain; Region: PAS_9; pfam13426 886377004411 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 886377004412 DNA binding residues [nucleotide binding] 886377004413 dimerization interface [polypeptide binding]; other site 886377004414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 886377004415 PAS domain S-box; Region: sensory_box; TIGR00229 886377004416 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 886377004417 putative active site [active] 886377004418 heme pocket [chemical binding]; other site 886377004419 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377004420 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 886377004421 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 886377004422 active site 886377004423 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377004424 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 886377004425 active site 886377004426 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377004427 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377004428 Family description; Region: VCBS; pfam13517 886377004429 Family description; Region: VCBS; pfam13517 886377004430 Family description; Region: VCBS; pfam13517 886377004431 Family description; Region: VCBS; pfam13517 886377004432 Family description; Region: VCBS; pfam13517 886377004433 FG-GAP repeat; Region: FG-GAP; cl15299 886377004434 Family description; Region: VCBS; pfam13517 886377004435 Predicted helicase [General function prediction only]; Region: COG4889 886377004436 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377004437 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377004438 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 886377004439 catalytic residues [active] 886377004440 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 886377004441 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377004442 active site 886377004443 catalytic site [active] 886377004444 substrate binding site [chemical binding]; other site 886377004445 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 886377004446 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 886377004447 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 886377004448 generic binding surface II; other site 886377004449 generic binding surface I; other site 886377004450 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 886377004451 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 886377004452 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 886377004453 RimM N-terminal domain; Region: RimM; pfam01782 886377004454 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 886377004455 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 886377004456 S-adenosylmethionine binding site [chemical binding]; other site 886377004457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377004458 acyl-coenzyme A oxidase; Region: PLN02526 886377004459 active site 886377004460 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 886377004461 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 886377004462 molybdopterin cofactor binding site; other site 886377004463 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 886377004464 putative molybdopterin cofactor binding site; other site 886377004465 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 886377004466 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 886377004467 active site 886377004468 DNA binding site [nucleotide binding] 886377004469 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 886377004470 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 886377004471 Catalytic site [active] 886377004472 Arginase family; Region: Arginase; cl00306 886377004473 urocanate hydratase; Provisional; Region: PRK05414 886377004474 imidazolonepropionase; Validated; Region: PRK09356 886377004475 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 886377004476 active site 886377004477 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 886377004478 active sites [active] 886377004479 tetramer interface [polypeptide binding]; other site 886377004480 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 886377004481 Helix-turn-helix domains; Region: HTH; cl00088 886377004482 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 886377004483 putative dimerization interface [polypeptide binding]; other site 886377004484 putative substrate binding pocket [chemical binding]; other site 886377004485 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 886377004486 putative FMN binding site [chemical binding]; other site 886377004487 Protein of unknown function (DUF456); Region: DUF456; cl01069 886377004488 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377004489 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; cl00284 886377004490 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 886377004491 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 886377004492 Helix-turn-helix domains; Region: HTH; cl00088 886377004493 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 886377004494 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377004495 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377004496 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377004497 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 886377004498 binding surface 886377004499 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377004500 TPR motif; other site 886377004501 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377004502 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 886377004503 TPR motif; other site 886377004504 binding surface 886377004505 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 886377004506 active site 886377004507 putative DNA-binding cleft [nucleotide binding]; other site 886377004508 dimer interface [polypeptide binding]; other site 886377004509 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 886377004510 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 886377004511 FeS/SAM binding site; other site 886377004512 HemN C-terminal domain; Region: HemN_C; pfam06969 886377004513 Putative cyclase; Region: Cyclase; cl00814 886377004514 Putative cyclase; Region: Cyclase; cl00814 886377004515 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 886377004516 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 886377004517 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 886377004518 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377004519 MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess...; Region: ABC_MutS-like; cd03283 886377004520 Walker A/P-loop; other site 886377004521 ATP binding site [chemical binding]; other site 886377004522 Q-loop/lid; other site 886377004523 ABC transporter signature motif; other site 886377004524 Walker B; other site 886377004525 D-loop; other site 886377004526 H-loop/switch region; other site 886377004527 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 886377004528 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 886377004529 Helix-turn-helix domains; Region: HTH; cl00088 886377004530 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 886377004531 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 886377004532 PhnA protein; Region: PhnA; pfam03831 886377004533 hypothetical protein; Provisional; Region: PRK08201 886377004534 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 886377004535 metal binding site [ion binding]; metal-binding site 886377004536 putative dimer interface [polypeptide binding]; other site 886377004537 WYL domain; Region: WYL; cl14852 886377004538 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 886377004539 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; cl16911 886377004540 phosphodiesterase; Provisional; Region: PRK12704 886377004541 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 886377004542 HsdM N-terminal domain; Region: HsdM_N; pfam12161 886377004543 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 886377004544 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; cl16911 886377004545 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 886377004546 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 886377004547 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 protein; Region: CSP_CDS; cd04458 886377004548 DNA-binding site [nucleotide binding]; DNA binding site 886377004549 RNA-binding motif; other site 886377004550 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 protein; Region: CSP_CDS; cd04458 886377004551 RNA-binding motif; other site 886377004552 DNA-binding site [nucleotide binding]; DNA binding site 886377004553 Domain of unknown function (DUF3825); Region: DUF3825; pfam12873 886377004554 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 886377004555 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 886377004556 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 886377004557 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377004558 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 886377004559 ATP binding site [chemical binding]; other site 886377004560 putative Mg++ binding site [ion binding]; other site 886377004561 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 886377004562 non-specific DNA binding site [nucleotide binding]; other site 886377004563 salt bridge; other site 886377004564 sequence-specific DNA binding site [nucleotide binding]; other site 886377004565 Protein of unknown function DUF91; Region: DUF91; cl00709 886377004566 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 886377004567 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 886377004568 active site 886377004569 DNA binding site [nucleotide binding] 886377004570 Int/Topo IB signature motif; other site 886377004571 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 886377004572 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; cl09944 886377004573 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377004574 PAS fold; Region: PAS_3; pfam08447 886377004575 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377004576 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 886377004577 ATP binding site [chemical binding]; other site 886377004578 Mg2+ binding site [ion binding]; other site 886377004579 G-X-G motif; other site 886377004580 serine racemase; Region: PLN02970 886377004581 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 886377004582 tetramer interface [polypeptide binding]; other site 886377004583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004584 catalytic residue [active] 886377004585 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 886377004586 Ligand Binding Site [chemical binding]; other site 886377004587 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 886377004588 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377004589 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 886377004590 ligand binding site [chemical binding]; other site 886377004591 flexible hinge region; other site 886377004592 Helix-turn-helix domains; Region: HTH; cl00088 886377004593 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 886377004594 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 886377004595 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; cl00207 886377004596 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377004597 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377004598 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 886377004599 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 886377004600 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 886377004601 Low-spin heme binding site [chemical binding]; other site 886377004602 Putative water exit pathway; other site 886377004603 Binuclear center (active site) [active] 886377004604 Putative proton exit pathway; other site 886377004605 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 886377004606 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 886377004607 Cytochrome c; Region: Cytochrom_C; cl11414 886377004608 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 886377004609 4Fe-4S binding domain; Region: Fer4_5; pfam12801 886377004610 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 886377004611 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 886377004612 FixH; Region: FixH; cl01254 886377004613 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 886377004614 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 886377004615 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 886377004616 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 886377004617 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 886377004618 Ligand Binding Site [chemical binding]; other site 886377004619 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 886377004620 Ligand Binding Site [chemical binding]; other site 886377004621 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 886377004622 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 886377004623 FeS/SAM binding site; other site 886377004624 HemN C-terminal domain; Region: HemN_C; pfam06969 886377004625 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 886377004626 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004627 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 886377004628 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377004629 active site 886377004630 Zn binding site [ion binding]; other site 886377004631 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377004632 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 886377004633 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 886377004634 Acetokinase family; Region: Acetate_kinase; cl01029 886377004635 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 886377004636 Ligand Binding Site [chemical binding]; other site 886377004637 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 886377004638 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 886377004639 active site 886377004640 ADP/pyrophosphate binding site [chemical binding]; other site 886377004641 dimerization interface [polypeptide binding]; other site 886377004642 allosteric effector site; other site 886377004643 fructose-1,6-bisphosphate binding site; other site 886377004644 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 A site; Region: RaiA; cd00552 886377004645 30S subunit binding site; other site 886377004646 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 886377004647 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 886377004648 putative substrate translocation pore; other site 886377004649 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 886377004650 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 886377004651 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 886377004652 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 886377004653 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 886377004654 inhibitor-cofactor binding pocket; inhibition site 886377004655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004656 catalytic residue [active] 886377004657 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 886377004658 UDP-glucose 4-epimerase; Region: PLN02240 886377004659 NAD binding site [chemical binding]; other site 886377004660 homodimer interface [polypeptide binding]; other site 886377004661 active site 886377004662 substrate binding site [chemical binding]; other site 886377004663 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 886377004664 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 886377004665 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 886377004666 TPP-binding site [chemical binding]; other site 886377004667 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 886377004668 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 886377004669 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 886377004670 E3 interaction surface; other site 886377004671 lipoyl attachment site [posttranslational modification]; other site 886377004672 e3 binding domain; Region: E3_binding; pfam02817 886377004673 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 886377004674 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 886377004675 catalytic motif [active] 886377004676 Catalytic residue [active] 886377004677 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 886377004678 active site 886377004679 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 886377004680 active site 886377004681 homodimer interface [polypeptide binding]; other site 886377004682 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 886377004683 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377004684 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 886377004685 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 886377004686 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 886377004687 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 886377004688 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 886377004689 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 886377004690 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 886377004691 putative dimer interface [polypeptide binding]; other site 886377004692 putative anticodon binding site; other site 886377004693 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 886377004694 homodimer interface [polypeptide binding]; other site 886377004695 motif 1; other site 886377004696 motif 2; other site 886377004697 active site 886377004698 motif 3; other site 886377004699 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 886377004700 ribosome recycling factor; Reviewed; Region: frr; PRK00083 886377004701 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 round of...; Region: RRF; cd00520 886377004702 hinge region; other site 886377004703 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 886377004704 putative nucleotide binding site [chemical binding]; other site 886377004705 uridine monophosphate binding site [chemical binding]; other site 886377004706 homohexameric interface [polypeptide binding]; other site 886377004707 elongation factor Ts; Provisional; Region: tsf; PRK09377 886377004708 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 886377004709 Elongation factor TS; Region: EF_TS; pfam00889 886377004710 Elongation factor TS; Region: EF_TS; pfam00889 886377004711 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 886377004712 rRNA interaction site [nucleotide binding]; other site 886377004713 S8 interaction site; other site 886377004714 putative laminin-1 binding site; other site 886377004715 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 886377004716 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 886377004717 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 886377004718 23S rRNA interface [nucleotide binding]; other site 886377004719 L3 interface [polypeptide binding]; other site 886377004720 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377004721 putative ligand binding site [chemical binding]; other site 886377004722 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 886377004723 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 886377004724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377004725 homodimer interface [polypeptide binding]; other site 886377004726 catalytic residue [active] 886377004727 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 886377004728 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 886377004729 Flavin Reductases; Region: FlaRed; cl00801 886377004730 fumarylacetoacetase; Region: PLN02856 886377004731 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 886377004732 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 886377004733 Cupin domain; Region: Cupin_2; cl09118 886377004734 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 886377004735 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 886377004736 dimer interface [polypeptide binding]; other site 886377004737 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 886377004738 active site 886377004739 Fe binding site [ion binding]; other site 886377004740 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377004741 Helix-turn-helix domains; Region: HTH; cl00088 886377004742 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377004743 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 886377004744 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377004745 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377004746 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 886377004747 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 886377004748 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 886377004749 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 886377004750 Domain interface; other site 886377004751 Peptide binding site; other site 886377004752 Active site tetrad [active] 886377004753 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 886377004754 catalytic residues [active] 886377004755 NIPSNAP; Region: NIPSNAP; pfam07978 886377004756 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 886377004757 DNA polymerase I; Provisional; Region: PRK05755 886377004758 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 886377004759 active site 886377004760 metal binding site 1 [ion binding]; metal-binding site 886377004761 putative 5' ssDNA interaction site; other site 886377004762 metal binding site 3; metal-binding site 886377004763 metal binding site 2 [ion binding]; metal-binding site 886377004764 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 886377004765 putative DNA binding site [nucleotide binding]; other site 886377004766 putative metal binding site [ion binding]; other site 886377004767 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 886377004768 active site 886377004769 catalytic site [active] 886377004770 substrate binding site [chemical binding]; other site 886377004771 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 886377004772 active site 886377004773 DNA binding site [nucleotide binding] 886377004774 catalytic site [active] 886377004775 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 886377004776 active site 886377004777 dimer interface [polypeptide binding]; other site 886377004778 catalytic nucleophile [active] 886377004779 CutC family; Region: CutC; cl01218 886377004780 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 886377004781 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377004782 putative active site [active] 886377004783 putative metal binding site [ion binding]; other site 886377004784 FOG: CBS domain [General function prediction only]; Region: COG0517 886377004785 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 886377004786 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 886377004787 catalytic residues [active] 886377004788 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 886377004789 PA14 domain; Region: PA14; cl08459 886377004790 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 886377004791 ligand binding surface [chemical binding]; other site 886377004792 ribosome maturation protein RimP; Reviewed; Region: PRK00092 886377004793 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 886377004794 transcription termination factor NusA; Region: NusA; TIGR01953 886377004795 NusA N-terminal domain; Region: NusA_N; pfam08529 886377004796 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 886377004797 RNA binding site [nucleotide binding]; other site 886377004798 homodimer interface [polypeptide binding]; other site 886377004799 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 886377004800 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 886377004801 G-X-X-G motif; other site 886377004802 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 886377004803 translation initiation factor IF-2; Region: IF-2; TIGR00487 886377004804 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 886377004805 G1 box; other site 886377004806 putative GEF interaction site [polypeptide binding]; other site 886377004807 GTP/Mg2+ binding site [chemical binding]; other site 886377004808 Switch I region; other site 886377004809 G2 box; other site 886377004810 G3 box; other site 886377004811 Switch II region; other site 886377004812 G4 box; other site 886377004813 G5 box; other site 886377004814 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 886377004815 Translation-initiation factor 2; Region: IF-2; pfam11987 886377004816 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 886377004817 Sporulation related domain; Region: SPOR; cl10051 886377004818 Cytochrome c; Region: Cytochrom_C; cl11414 886377004819 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 886377004820 heme-binding residues [chemical binding]; other site 886377004821 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 886377004822 heme-binding residues [chemical binding]; other site 886377004823 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 886377004824 molybdopterin cofactor binding site; other site 886377004825 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 886377004826 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 886377004827 Polysulphide reductase, NrfD; Region: NrfD; cl01295 886377004828 Uncharacterized conserved protein [Function unknown]; Region: COG3743 886377004829 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 886377004830 Cytochrome c; Region: Cytochrom_C; cl11414 886377004831 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 886377004832 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 886377004833 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 886377004834 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377004835 D-pathway; other site 886377004836 Low-spin heme binding site [chemical binding]; other site 886377004837 Putative water exit pathway; other site 886377004838 Binuclear center (active site) [active] 886377004839 K-pathway; other site 886377004840 Putative proton exit pathway; other site 886377004841 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377004842 acyl-coenzyme A oxidase; Region: PLN02636 886377004843 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377004844 active site 886377004845 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 886377004846 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 886377004847 Walker A motif; other site 886377004848 ATP binding site [chemical binding]; other site 886377004849 Walker B motif; other site 886377004850 arginine finger; other site 886377004851 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 886377004852 Cytochrome c [Energy production and conversion]; Region: COG3258 886377004853 Cytochrome c; Region: Cytochrom_C; cl11414 886377004854 DsrE/DsrF-like family; Region: DrsE; cl00672 886377004855 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377004856 GIY-YIG motif/motif A; other site 886377004857 putative active site [active] 886377004858 putative metal binding site [ion binding]; other site 886377004859 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 886377004860 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 886377004861 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 886377004862 Malic enzyme, N-terminal domain; Region: malic; pfam00390 886377004863 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 886377004864 putative NAD(P) binding site [chemical binding]; other site 886377004865 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 886377004866 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 886377004867 RuvA N terminal domain; Region: RuvA_N; pfam01330 886377004868 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 886377004869 Motility related/secretion protein; Region: SprA_N; pfam14349 886377004870 Motility related/secretion protein; Region: SprA_N; pfam14349 886377004871 Motility related/secretion protein; Region: SprA_N; pfam14349 886377004872 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 886377004873 lipoyl attachment site [posttranslational modification]; other site 886377004874 VanZ like family; Region: VanZ; cl01971 886377004875 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377004876 UbiA prenyltransferase family; Region: UbiA; cl00337 886377004877 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 886377004878 Subunit I/III interface [polypeptide binding]; other site 886377004879 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 886377004880 Subunit I/III interface [polypeptide binding]; other site 886377004881 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 886377004882 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 886377004883 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 886377004884 Cu(I) binding site [ion binding]; other site 886377004885 Protein of unknown function (DUF420); Region: DUF420; cl00989 886377004887 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377004888 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377004889 Walker A/P-loop; other site 886377004890 ATP binding site [chemical binding]; other site 886377004891 Q-loop/lid; other site 886377004892 ABC transporter signature motif; other site 886377004893 Walker B; other site 886377004894 D-loop; other site 886377004895 H-loop/switch region; other site 886377004896 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377004897 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 886377004898 FtsX-like permease family; Region: FtsX; cl15850 886377004899 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377004900 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 886377004901 FtsX-like permease family; Region: FtsX; cl15850 886377004902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377004903 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004904 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377004905 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377004906 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 886377004907 Conserved TM helix; Region: TM_helix; pfam05552 886377004908 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377004909 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 886377004910 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 886377004911 catalytic residues [active] 886377004912 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 886377004913 Dodecin; Region: Dodecin; cl01328 886377004914 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 886377004915 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 886377004916 NifU-like domain; Region: NifU; cl00484 886377004917 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377004918 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 886377004919 metal ion-dependent adhesion site (MIDAS); other site 886377004920 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377004921 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377004922 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 886377004923 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377004924 Histidine kinase; Region: His_kinase; pfam06580 886377004925 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377004926 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 886377004927 Response regulator receiver domain; Region: Response_reg; pfam00072 886377004928 active site 886377004929 phosphorylation site [posttranslational modification] 886377004930 intermolecular recognition site; other site 886377004931 dimerization interface [polypeptide binding]; other site 886377004932 LytTr DNA-binding domain; Region: LytTR; cl04498 886377004933 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 886377004934 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 886377004935 trimer interface [polypeptide binding]; other site 886377004936 putative metal binding site [ion binding]; other site 886377004937 Acyl transferase domain; Region: Acyl_transf_1; cl08282 886377004938 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 886377004939 Calx-beta domain; Region: Calx-beta; cl02522 886377004940 Calx-beta domain; Region: Calx-beta; cl02522 886377004941 Calx-beta domain; Region: Calx-beta; cl02522 886377004942 Calx-beta domain; Region: Calx-beta; cl02522 886377004943 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377004944 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377004945 TPR repeat; Region: TPR_11; pfam13414 886377004946 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 886377004947 binding surface 886377004948 TPR motif; other site 886377004949 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377004950 ligand binding site [chemical binding]; other site 886377004951 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 886377004952 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 886377004953 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 886377004954 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 886377004955 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; cl12031 886377004956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377004957 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377004958 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377004959 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377004960 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 886377004961 GIY-YIG motif/motif A; other site 886377004962 putative active site [active] 886377004963 putative metal binding site [ion binding]; other site 886377004964 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 886377004965 MutS domain I; Region: MutS_I; pfam01624 886377004966 MutS domain II; Region: MutS_II; pfam05188 886377004967 MutS family domain IV; Region: MutS_IV; pfam05190 886377004968 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 886377004969 Walker A/P-loop; other site 886377004970 ATP binding site [chemical binding]; other site 886377004971 Q-loop/lid; other site 886377004972 ABC transporter signature motif; other site 886377004973 Walker B; other site 886377004974 D-loop; other site 886377004975 H-loop/switch region; other site 886377004976 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 886377004977 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 886377004978 catalytic center binding site [active] 886377004979 ATP binding site [chemical binding]; other site 886377004980 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 886377004981 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 886377004982 Substrate-binding site [chemical binding]; other site 886377004983 Substrate specificity [chemical binding]; other site 886377004984 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 886377004985 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 886377004986 tandem repeat interface [polypeptide binding]; other site 886377004987 oligomer interface [polypeptide binding]; other site 886377004988 active site residues [active] 886377004989 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 886377004990 tandem repeat interface [polypeptide binding]; other site 886377004991 oligomer interface [polypeptide binding]; other site 886377004992 active site residues [active] 886377004993 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 886377004994 AsmA-like C-terminal region; Region: AsmA_2; cl15864 886377004995 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 886377004996 GH3 auxin-responsive promoter; Region: GH3; cl04006 886377004997 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 886377004998 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 886377004999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377005000 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 886377005001 Walker A motif; other site 886377005002 ATP binding site [chemical binding]; other site 886377005003 Walker B motif; other site 886377005004 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 886377005005 Clp protease; Region: CLP_protease; pfam00574 886377005006 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377005007 oligomer interface [polypeptide binding]; other site 886377005008 active site residues [active] 886377005009 trigger factor; Region: tig; TIGR00115 886377005010 Membrane protein of unknown function; Region: DUF360; cl00850 886377005011 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 886377005012 catalytic triad [active] 886377005013 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; cl12031 886377005014 acyl-CoA esterase; Provisional; Region: PRK10673 886377005015 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 the...; Region: PNPsynthase; cd00003 886377005016 active site 886377005017 hydrophilic channel; other site 886377005018 dimerization interface [polypeptide binding]; other site 886377005019 catalytic residues [active] 886377005020 active site lid [active] 886377005021 FOG: CBS domain [General function prediction only]; Region: COG0517 886377005022 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 886377005023 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 886377005024 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377005025 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 886377005026 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 886377005027 catalytic residue [active] 886377005028 putative FPP diphosphate binding site; other site 886377005029 putative FPP binding hydrophobic cleft; other site 886377005030 dimer interface [polypeptide binding]; other site 886377005031 putative IPP diphosphate binding site; other site 886377005032 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 886377005033 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 886377005034 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 886377005035 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 886377005036 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 886377005037 Surface antigen; Region: Bac_surface_Ag; cl03097 886377005038 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377005039 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 886377005040 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 886377005041 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 886377005042 folate binding site [chemical binding]; other site 886377005043 NADP+ binding site [chemical binding]; other site 886377005044 2TM domain; Region: 2TM; pfam13239 886377005045 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 886377005046 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 886377005047 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377005048 catalytic residue [active] 886377005049 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 886377005050 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; cl12031 886377005051 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 886377005052 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 886377005053 dimerization interface [polypeptide binding]; other site 886377005054 active site 886377005055 nucleoside transporter; Region: nupC; TIGR00804 886377005056 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 886377005057 Nucleoside recognition; Region: Gate; cl00486 886377005058 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 886377005059 Bifunctional nuclease; Region: DNase-RNase; cl00553 886377005060 UvrB/uvrC motif; Region: UVR; pfam02151 886377005061 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 886377005062 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 886377005063 Ligand Binding Site [chemical binding]; other site 886377005064 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 886377005065 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 886377005066 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 886377005067 Ligand binding site [chemical binding]; other site 886377005068 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 886377005069 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 886377005070 alpha subunit interface [polypeptide binding]; other site 886377005071 TPP binding site [chemical binding]; other site 886377005072 heterodimer interface [polypeptide binding]; other site 886377005073 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377005074 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377005075 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 886377005076 dimer interface [polypeptide binding]; other site 886377005077 substrate binding site [chemical binding]; other site 886377005078 metal binding sites [ion binding]; metal-binding site 886377005079 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 886377005080 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 886377005081 Gram-negative bacterial tonB protein; Region: TonB; cl10048 886377005082 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377005083 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377005084 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 886377005085 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 886377005086 Substrate-binding site [chemical binding]; other site 886377005087 Substrate specificity [chemical binding]; other site 886377005088 S-adenosylmethionine synthetase; Validated; Region: PRK05250 886377005089 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 886377005090 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 886377005091 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 886377005092 Predicted acyl esterases [General function prediction only]; Region: COG2936 886377005093 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 886377005094 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 886377005095 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 886377005096 homodimer interface [polypeptide binding]; other site 886377005097 substrate-cofactor binding pocket; other site 886377005098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005099 catalytic residue [active] 886377005100 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 886377005101 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; cl12031 886377005102 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 886377005103 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 886377005104 nucleotide binding site [chemical binding]; other site 886377005105 substrate binding site [chemical binding]; other site 886377005106 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377005107 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 886377005108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005109 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 886377005110 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 886377005111 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 886377005112 homodimer interface [polypeptide binding]; other site 886377005113 substrate-cofactor binding pocket; other site 886377005114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005115 catalytic residue [active] 886377005116 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377005117 Helix-turn-helix domains; Region: HTH; cl00088 886377005118 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 886377005119 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 886377005120 Active Sites [active] 886377005121 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 886377005122 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 886377005123 Active Sites [active] 886377005124 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 886377005125 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 886377005126 CysD dimerization site [polypeptide binding]; other site 886377005127 G1 box; other site 886377005128 putative GEF interaction site [polypeptide binding]; other site 886377005129 GTP/Mg2+ binding site [chemical binding]; other site 886377005130 Switch I region; other site 886377005131 G2 box; other site 886377005132 G3 box; other site 886377005133 Switch II region; other site 886377005134 G4 box; other site 886377005135 G5 box; other site 886377005136 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 886377005137 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 886377005138 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 886377005139 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377005140 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377005141 HEPN domain; Region: HEPN; cl00824 886377005142 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 886377005143 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 886377005144 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377005145 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377005146 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377005147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377005148 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 886377005149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005150 NAD(P) binding site [chemical binding]; other site 886377005151 active site 886377005152 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 886377005153 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 886377005154 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 886377005155 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 886377005156 substrate binding pocket [chemical binding]; other site 886377005157 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 886377005158 B12 binding site [chemical binding]; other site 886377005159 cobalt ligand [ion binding]; other site 886377005160 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 886377005161 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 886377005162 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 886377005163 FAD binding site [chemical binding]; other site 886377005164 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 886377005165 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377005166 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377005167 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 886377005168 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 886377005169 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377005170 catalytic residue [active] 886377005171 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 886377005172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377005173 Walker A/P-loop; other site 886377005174 ATP binding site [chemical binding]; other site 886377005175 Q-loop/lid; other site 886377005176 ABC transporter signature motif; other site 886377005177 Walker B; other site 886377005178 D-loop; other site 886377005179 H-loop/switch region; other site 886377005180 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 886377005181 Prephenate dehydratase; Region: PDT; pfam00800 886377005182 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 886377005183 putative L-Phe binding site [chemical binding]; other site 886377005184 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 886377005185 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 886377005186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005187 homodimer interface [polypeptide binding]; other site 886377005188 catalytic residue [active] 886377005189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005190 Prephenate dehydrogenase; Region: PDH; pfam02153 886377005191 NeuB family; Region: NeuB; cl00496 886377005192 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 886377005193 Chorismate mutase type II; Region: CM_2; cl00693 886377005194 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377005195 Protein of unknown function (DUF2756); Region: DUF2756; cl08110 886377005196 GTPase RsgA; Reviewed; Region: PRK00098 886377005197 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 886377005198 RNA binding site [nucleotide binding]; other site 886377005199 homodimer interface [polypeptide binding]; other site 886377005200 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 886377005201 GTPase/Zn-binding domain interface [polypeptide binding]; other site 886377005202 GTP/Mg2+ binding site [chemical binding]; other site 886377005203 G4 box; other site 886377005204 G5 box; other site 886377005205 G1 box; other site 886377005206 Switch I region; other site 886377005207 G2 box; other site 886377005208 G3 box; other site 886377005209 Switch II region; other site 886377005210 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 886377005211 putative active site [active] 886377005212 dimerization interface [polypeptide binding]; other site 886377005213 putative tRNAtyr binding site [nucleotide binding]; other site 886377005214 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005215 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 886377005216 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005217 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 886377005218 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 886377005219 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 886377005220 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 886377005221 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 886377005222 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 886377005223 hinge; other site 886377005224 active site 886377005225 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 886377005226 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 886377005227 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 886377005228 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 886377005229 FeS/SAM binding site; other site 886377005230 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 886377005231 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 886377005232 substrate binding pocket [chemical binding]; other site 886377005233 chain length determination region; other site 886377005234 substrate-Mg2+ binding site; other site 886377005235 catalytic residues [active] 886377005236 aspartate-rich region 1; other site 886377005237 active site lid residues [active] 886377005238 aspartate-rich region 2; other site 886377005239 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377005240 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005241 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 886377005242 DNA binding residues [nucleotide binding] 886377005243 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 886377005244 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 886377005245 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 886377005246 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; cl12031 886377005247 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 886377005248 DNA primase; Validated; Region: dnaG; PRK05667 886377005249 CHC2 zinc finger; Region: zf-CHC2; cl15369 886377005250 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 886377005251 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 886377005252 active site 886377005253 metal binding site [ion binding]; metal-binding site 886377005254 interdomain interaction site; other site 886377005255 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 886377005256 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377005257 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 886377005258 active site 886377005259 phosphorylation site [posttranslational modification] 886377005260 intermolecular recognition site; other site 886377005261 dimerization interface [polypeptide binding]; other site 886377005262 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 886377005263 DNA binding residues [nucleotide binding] 886377005264 dimerization interface [polypeptide binding]; other site 886377005265 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 886377005266 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 886377005267 homodimer interface [polypeptide binding]; other site 886377005268 NAD binding pocket [chemical binding]; other site 886377005269 ATP binding pocket [chemical binding]; other site 886377005270 Mg binding site [ion binding]; other site 886377005271 active-site loop [active] 886377005272 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 886377005273 gliding motility-associated protein GldC; Region: GldC; TIGR03515 886377005274 Pirin-related protein [General function prediction only]; Region: COG1741 886377005275 Cupin domain; Region: Cupin_2; cl09118 886377005276 Predicted GTPase [General function prediction only]; Region: COG0218 886377005277 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 886377005278 G1 box; other site 886377005279 GTP/Mg2+ binding site [chemical binding]; other site 886377005280 Switch I region; other site 886377005281 G2 box; other site 886377005282 G3 box; other site 886377005283 Switch II region; other site 886377005284 G4 box; other site 886377005285 G5 box; other site 886377005286 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 886377005287 cell division protein MraZ; Reviewed; Region: PRK00326 886377005288 MraZ protein; Region: MraZ; pfam02381 886377005289 MraZ protein; Region: MraZ; pfam02381 886377005290 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 886377005291 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; cl16911 886377005292 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 886377005293 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 886377005294 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377005295 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 886377005296 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 886377005297 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377005298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005299 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005300 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 886377005301 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 886377005302 Mg++ binding site [ion binding]; other site 886377005303 putative catalytic motif [active] 886377005304 putative substrate binding site [chemical binding]; other site 886377005305 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 886377005306 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005307 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005308 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 886377005309 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 886377005310 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 886377005311 active site 886377005312 homodimer interface [polypeptide binding]; other site 886377005313 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 886377005314 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 886377005315 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 886377005316 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 886377005317 cell division protein FtsA; Region: ftsA; TIGR01174 886377005318 Cell division protein FtsA; Region: FtsA; cl11496 886377005319 Cell division protein FtsA; Region: FtsA; cl11496 886377005320 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 886377005321 nucleotide binding site [chemical binding]; other site 886377005322 SulA interaction site; other site 886377005323 GatB domain; Region: GatB_Yqey; cl11497 886377005324 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; cl00161 886377005325 folate binding site [chemical binding]; other site 886377005326 NADP+ binding site [chemical binding]; other site 886377005327 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 886377005328 DinB superfamily; Region: DinB_2; pfam12867 886377005329 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 886377005330 ligand binding site [chemical binding]; other site 886377005331 flexible hinge region; other site 886377005332 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 886377005333 NRDE protein; Region: NRDE; cl01315 886377005334 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377005335 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 886377005336 catalytic residues [active] 886377005337 dimer interface [polypeptide binding]; other site 886377005338 Predicted membrane protein [Function unknown]; Region: COG4270 886377005339 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 886377005340 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377005341 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 886377005342 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 886377005343 substrate binding site [chemical binding]; other site 886377005344 hexamer interface [polypeptide binding]; other site 886377005345 metal binding site [ion binding]; metal-binding site 886377005346 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377005347 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 886377005348 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005349 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377005350 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 886377005351 DNA binding residues [nucleotide binding] 886377005352 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 886377005353 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 886377005354 RNase E interface [polypeptide binding]; other site 886377005355 trimer interface [polypeptide binding]; other site 886377005356 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 886377005357 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 886377005358 RNase E interface [polypeptide binding]; other site 886377005359 trimer interface [polypeptide binding]; other site 886377005360 active site 886377005361 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 886377005362 putative nucleic acid binding region [nucleotide binding]; other site 886377005363 G-X-X-G motif; other site 886377005364 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 886377005365 RNA binding site [nucleotide binding]; other site 886377005366 domain interface; other site 886377005367 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 886377005368 16S/18S rRNA binding site [nucleotide binding]; other site 886377005369 S13e-L30e interaction site [polypeptide binding]; other site 886377005370 25S rRNA binding site [nucleotide binding]; other site 886377005371 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 886377005372 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377005373 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 886377005374 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 886377005375 active site 886377005376 intersubunit interface [polypeptide binding]; other site 886377005377 zinc binding site [ion binding]; other site 886377005378 Na+ binding site [ion binding]; other site 886377005379 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 886377005380 Surface antigen; Region: Bac_surface_Ag; cl03097 886377005381 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 886377005382 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 886377005383 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 886377005384 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377005385 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 886377005386 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; cl16911 886377005387 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 886377005388 S-adenosylmethionine binding site [chemical binding]; other site 886377005389 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 886377005390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005391 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; cl15357 886377005392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005393 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; cl15357 886377005394 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 886377005395 Cation transport protein; Region: TrkH; cl10514 886377005396 aspartate aminotransferase; Provisional; Region: PRK05764 886377005397 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 886377005398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005399 homodimer interface [polypeptide binding]; other site 886377005400 catalytic residue [active] 886377005401 Fatty acid desaturase; Region: FA_desaturase; pfam00487 886377005402 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 886377005403 putative di-iron ligands [ion binding]; other site 886377005404 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 886377005405 S-adenosylmethionine binding site [chemical binding]; other site 886377005406 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 886377005407 TPR motif; other site 886377005408 binding surface 886377005409 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 886377005410 binding surface 886377005411 TPR motif; other site 886377005412 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70); Region: 3a0801s09; TIGR00990 886377005413 Creatinine amidohydrolase; Region: Creatininase; cl00618 886377005414 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 886377005415 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 886377005416 Glutamate binding site [chemical binding]; other site 886377005417 NAD binding site [chemical binding]; other site 886377005418 catalytic residues [active] 886377005419 Protein of unknown function (DUF525); Region: DUF525; cl01119 886377005420 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 886377005421 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 886377005422 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 886377005423 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 886377005424 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 886377005425 FMN-binding domain; Region: FMN_bind; cl01081 886377005426 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 886377005427 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 886377005428 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 886377005429 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 886377005430 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 886377005431 catalytic loop [active] 886377005432 iron binding site [ion binding]; other site 886377005433 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 886377005434 FAD binding pocket [chemical binding]; other site 886377005435 FAD binding motif [chemical binding]; other site 886377005436 phosphate binding motif [ion binding]; other site 886377005437 beta-alpha-beta structure motif; other site 886377005438 NAD binding pocket [chemical binding]; other site 886377005439 ApbE family; Region: ApbE; cl00643 886377005440 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 886377005441 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 886377005442 active site 886377005443 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 886377005444 Sulfatase; Region: Sulfatase; cl10460 886377005445 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 886377005446 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 886377005447 Peptidase family M48; Region: Peptidase_M48; cl12018 886377005448 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 886377005449 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377005450 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377005451 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377005452 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 886377005453 Zn binding site [ion binding]; other site 886377005454 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 886377005455 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 886377005456 active site 886377005457 O-methyltransferase; Region: Methyltransf_3; pfam01596 886377005458 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 886377005459 S-adenosylmethionine binding site [chemical binding]; other site 886377005460 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377005461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377005462 Coenzyme A binding pocket [chemical binding]; other site 886377005463 kynureninase; Region: kynureninase; TIGR01814 886377005464 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 886377005465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 886377005466 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 886377005467 putative substrate translocation pore; other site 886377005468 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 886377005469 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377005470 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005471 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377005472 Conserved TM helix; Region: TM_helix; pfam05552 886377005473 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 886377005474 Conserved TM helix; Region: TM_helix; pfam05552 886377005475 Clp protease; Region: CLP_protease; pfam00574 886377005476 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377005477 oligomer interface [polypeptide binding]; other site 886377005478 active site residues [active] 886377005479 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 886377005480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005482 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 886377005483 Putative zinc ribbon domain; Region: DUF164; pfam02591 886377005484 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 886377005485 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 886377005486 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 886377005487 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 886377005488 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 886377005489 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377005490 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 886377005491 dimer interface [polypeptide binding]; other site 886377005492 phosphorylation site [posttranslational modification] 886377005493 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 886377005494 ATP binding site [chemical binding]; other site 886377005495 Mg2+ binding site [ion binding]; other site 886377005496 G-X-G motif; other site 886377005497 Response regulator receiver domain; Region: Response_reg; pfam00072 886377005498 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 886377005499 active site 886377005500 phosphorylation site [posttranslational modification] 886377005501 intermolecular recognition site; other site 886377005502 dimerization interface [polypeptide binding]; other site 886377005503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005504 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 886377005505 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 886377005506 lipoyl synthase; Provisional; Region: PRK05481 886377005507 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 886377005508 FeS/SAM binding site; other site 886377005509 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 886377005510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005511 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 886377005512 Anti-sigma-K factor rskA; Region: RskA; pfam10099 886377005513 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377005514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005515 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 886377005516 DNA binding residues [nucleotide binding] 886377005517 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 886377005518 FAD binding domain; Region: FAD_binding_4; pfam01565 886377005519 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 886377005520 aspartate aminotransferase; Provisional; Region: PRK07568 886377005521 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 886377005522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005523 homodimer interface [polypeptide binding]; other site 886377005524 catalytic residue [active] 886377005525 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 886377005526 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 886377005527 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 886377005528 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 886377005529 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 886377005530 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377005531 active site 886377005532 HIGH motif; other site 886377005533 nucleotide binding site [chemical binding]; other site 886377005534 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 886377005535 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 886377005536 active site 886377005537 KMSKS motif; other site 886377005538 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 886377005539 tRNA binding surface [nucleotide binding]; other site 886377005540 anticodon binding site; other site 886377005541 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 886377005542 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377005543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005544 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 886377005545 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 886377005546 active site 886377005547 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377005548 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377005549 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 886377005550 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 886377005551 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 886377005552 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 886377005553 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 886377005554 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 886377005555 Walker A motif; other site 886377005556 ATP binding site [chemical binding]; other site 886377005557 Walker B motif; other site 886377005558 arginine finger; other site 886377005559 Peptidase family M41; Region: Peptidase_M41; pfam01434 886377005560 Oligomerisation domain; Region: Oligomerisation; cl00519 886377005561 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 886377005562 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 886377005563 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 886377005564 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377005565 active site 886377005566 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 886377005567 active site 886377005568 Ap6A binding site [chemical binding]; other site 886377005569 nudix motif; other site 886377005570 metal binding site [ion binding]; metal-binding site 886377005571 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 886377005572 putative active site [active] 886377005573 Zn binding site [ion binding]; other site 886377005574 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 886377005575 active site 886377005576 phosphorylation site [posttranslational modification] 886377005577 intermolecular recognition site; other site 886377005578 PAS domain S-box; Region: sensory_box; TIGR00229 886377005579 PAS fold; Region: PAS_4; pfam08448 886377005580 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 886377005581 putative active site [active] 886377005582 heme pocket [chemical binding]; other site 886377005583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377005584 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 886377005585 ATP binding site [chemical binding]; other site 886377005586 Mg2+ binding site [ion binding]; other site 886377005587 G-X-G motif; other site 886377005588 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 886377005589 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 886377005590 active site 886377005591 (T/H)XGH motif; other site 886377005592 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 886377005593 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 886377005594 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377005595 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 886377005596 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 886377005597 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 886377005598 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 886377005599 RNA binding surface [nucleotide binding]; other site 886377005600 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377005601 active site 886377005602 Protein of unknown function (DUF328); Region: DUF328; cl01143 886377005603 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 886377005604 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 886377005605 putative active site [active] 886377005606 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377005607 hypothetical protein; Provisional; Region: PRK08201 886377005608 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 886377005609 putative metal binding site [ion binding]; other site 886377005610 putative dimer interface [polypeptide binding]; other site 886377005611 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 886377005612 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 886377005613 substrate binding site [chemical binding]; other site 886377005614 active site 886377005615 catalytic residues [active] 886377005616 heterodimer interface [polypeptide binding]; other site 886377005617 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 886377005618 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 886377005619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005620 catalytic residue [active] 886377005621 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 monomeric; Region: PRAI; cd00405 886377005622 active site 886377005623 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 886377005624 active site 886377005625 ribulose/triose binding site [chemical binding]; other site 886377005626 phosphate binding site [ion binding]; other site 886377005627 substrate (anthranilate) binding pocket [chemical binding]; other site 886377005628 product (indole) binding pocket [chemical binding]; other site 886377005629 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 886377005630 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 886377005631 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 886377005632 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 886377005633 Glutamine amidotransferase class-I; Region: GATase; pfam00117 886377005634 glutamine binding [chemical binding]; other site 886377005635 catalytic triad [active] 886377005636 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 886377005637 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 886377005638 chorismate binding enzyme; Region: Chorismate_bind; cl10555 886377005639 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 886377005640 GIY-YIG motif/motif A; other site 886377005641 putative active site [active] 886377005642 putative metal binding site [ion binding]; other site 886377005643 YceI-like domain; Region: YceI; cl01001 886377005644 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 886377005645 dimer interface [polypeptide binding]; other site 886377005646 FMN binding site [chemical binding]; other site 886377005647 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377005648 Helix-turn-helix domains; Region: HTH; cl00088 886377005649 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 886377005650 catalytic residues [active] 886377005651 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 886377005652 putative catalytic residue [active] 886377005653 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 886377005654 active site residue [active] 886377005655 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 886377005656 PspC domain; Region: PspC; cl00864 886377005657 Ion channel; Region: Ion_trans_2; cl11596 886377005658 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 886377005659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005660 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; cl15357 886377005661 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 886377005662 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 886377005663 E3 interaction surface; other site 886377005664 lipoyl attachment site [posttranslational modification]; other site 886377005665 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377005666 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377005667 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 886377005668 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 886377005669 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377005670 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377005671 active site 886377005672 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 886377005673 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 886377005674 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 886377005675 active site 886377005676 DNA binding site [nucleotide binding] 886377005677 Int/Topo IB signature motif; other site 886377005678 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 A site; Region: RaiA; cd00552 886377005679 30S subunit binding site; other site 886377005680 elongation factor Tu; Reviewed; Region: PRK12735 886377005681 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 886377005682 G1 box; other site 886377005683 GEF interaction site [polypeptide binding]; other site 886377005684 GTP/Mg2+ binding site [chemical binding]; other site 886377005685 Switch I region; other site 886377005686 G2 box; other site 886377005687 G3 box; other site 886377005688 Switch II region; other site 886377005689 G4 box; other site 886377005690 G5 box; other site 886377005691 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 886377005692 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 886377005693 Antibiotic Binding Site [chemical binding]; other site 886377005694 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 886377005695 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 886377005696 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 886377005697 putative homodimer interface [polypeptide binding]; other site 886377005698 KOW motif; Region: KOW; cl00354 886377005699 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 886377005700 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 886377005701 23S rRNA interface [nucleotide binding]; other site 886377005702 L7/L12 interface [polypeptide binding]; other site 886377005703 putative thiostrepton binding site; other site 886377005704 L25 interface [polypeptide binding]; other site 886377005705 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 886377005706 mRNA/rRNA interface [nucleotide binding]; other site 886377005707 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 886377005708 23S rRNA interface [nucleotide binding]; other site 886377005709 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 886377005710 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 886377005711 core dimer interface [polypeptide binding]; other site 886377005712 peripheral dimer interface [polypeptide binding]; other site 886377005713 L10 interface [polypeptide binding]; other site 886377005714 L11 interface [polypeptide binding]; other site 886377005715 putative EF-Tu interaction site [polypeptide binding]; other site 886377005716 putative EF-G interaction site [polypeptide binding]; other site 886377005717 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; cl04593 886377005718 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 886377005719 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 886377005720 RPB11 interaction site [polypeptide binding]; other site 886377005721 RPB12 interaction site [polypeptide binding]; other site 886377005722 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 886377005723 RPB3 interaction site [polypeptide binding]; other site 886377005724 RPB1 interaction site [polypeptide binding]; other site 886377005725 RPB11 interaction site [polypeptide binding]; other site 886377005726 RPB10 interaction site [polypeptide binding]; other site 886377005727 RNA polymerase beta' subunit; Region: rpoC1; CHL00018 886377005728 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 886377005729 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 886377005730 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 886377005731 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 886377005732 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 886377005733 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 886377005734 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 886377005735 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 886377005736 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 886377005737 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 886377005738 DNA binding site [nucleotide binding] 886377005739 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 886377005740 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 886377005741 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 886377005742 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 886377005743 G1 box; other site 886377005744 putative GEF interaction site [polypeptide binding]; other site 886377005745 GTP/Mg2+ binding site [chemical binding]; other site 886377005746 Switch I region; other site 886377005747 G2 box; other site 886377005748 G3 box; other site 886377005749 Switch II region; other site 886377005750 G4 box; other site 886377005751 G5 box; other site 886377005752 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 886377005753 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377005754 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377005755 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377005756 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 886377005757 binding surface 886377005758 TPR motif; other site 886377005759 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377005760 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377005761 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377005762 ligand binding site [chemical binding]; other site 886377005763 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377005764 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377005765 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 886377005766 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 886377005767 active site 886377005768 metal binding site [ion binding]; metal-binding site 886377005769 nudix motif; other site 886377005770 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377005771 active site 886377005772 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 886377005773 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 886377005774 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 886377005775 Protein of unknown function (DUF819); Region: DUF819; cl02317 886377005776 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 886377005777 putative ligand binding site [chemical binding]; other site 886377005778 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 886377005779 active site 886377005780 Zn binding site [ion binding]; other site 886377005781 Cupin domain; Region: Cupin_2; cl09118 886377005782 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377005783 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 886377005784 MOSC domain; Region: MOSC; pfam03473 886377005785 RNA polymerase sigma factor SigW; Provisional; Region: PRK09641 886377005786 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377005787 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 886377005788 DNA binding residues [nucleotide binding] 886377005789 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 886377005790 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 886377005791 Predicted membrane protein [Function unknown]; Region: COG4270 886377005792 heat shock protein 90; Provisional; Region: PRK05218 886377005793 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 886377005794 ATP binding site [chemical binding]; other site 886377005795 Mg2+ binding site [ion binding]; other site 886377005796 G-X-G motif; other site 886377005797 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 886377005798 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 886377005799 active site 886377005800 ATP binding site [chemical binding]; other site 886377005801 substrate binding site [chemical binding]; other site 886377005802 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 886377005803 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 886377005804 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 886377005805 dimer interface [polypeptide binding]; other site 886377005806 active site 886377005807 CoA binding pocket [chemical binding]; other site 886377005808 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377005809 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377005810 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; cl00284 886377005811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005812 Sodium:solute symporter family; Region: SSF; cl00456 886377005813 recombination protein RecR; Reviewed; Region: recR; PRK00076 886377005814 RecR protein; Region: RecR; pfam02132 886377005815 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 886377005816 putative active site [active] 886377005817 putative metal-binding site [ion binding]; other site 886377005818 tetramer interface [polypeptide binding]; other site 886377005819 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 886377005820 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 886377005821 E3 interaction surface; other site 886377005822 lipoyl attachment site [posttranslational modification]; other site 886377005823 e3 binding domain; Region: E3_binding; pfam02817 886377005824 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 886377005825 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 886377005826 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377005827 active site 886377005828 catalytic site [active] 886377005829 substrate binding site [chemical binding]; other site 886377005830 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 886377005831 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 886377005832 competence damage-inducible protein A; Provisional; Region: PRK00549 886377005833 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 886377005834 putative MPT binding site; other site 886377005835 Competence-damaged protein; Region: CinA; cl00666 886377005836 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 886377005837 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 886377005838 Domain of unknown function (DUF4295); Region: DUF4295; pfam14128 886377005839 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 886377005840 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 886377005841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377005842 amidase; Provisional; Region: PRK06707 886377005843 Amidase; Region: Amidase; cl11426 886377005844 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 886377005845 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 886377005846 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 886377005847 FeS/SAM binding site; other site 886377005848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005849 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377005850 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 886377005851 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377005852 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 886377005853 hydrophobic ligand binding site; other site 886377005854 SurA N-terminal domain; Region: SurA_N_3; cl07813 886377005855 PPIC-type PPIASE domain; Region: Rotamase; cl08278 886377005856 PPIC-type PPIASE domain; Region: Rotamase; cl08278 886377005857 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377005858 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 886377005859 Walker A motif; other site 886377005860 ATP binding site [chemical binding]; other site 886377005861 Walker B motif; other site 886377005862 arginine finger; other site 886377005863 aconitate hydratase; Validated; Region: PRK07229 886377005864 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 886377005865 substrate binding site [chemical binding]; other site 886377005866 ligand binding site [chemical binding]; other site 886377005867 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 886377005868 substrate binding site [chemical binding]; other site 886377005869 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 886377005870 catalytic residues [active] 886377005871 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 886377005872 catalytic residues [active] 886377005873 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377005874 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 886377005875 active site lid residues [active] 886377005876 substrate binding pocket [chemical binding]; other site 886377005877 catalytic residues [active] 886377005878 substrate-Mg2+ binding site; other site 886377005879 aspartate-rich region 1; other site 886377005880 aspartate-rich region 2; other site 886377005881 phytoene desaturase; Region: crtI_fam; TIGR02734 886377005882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005883 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 886377005884 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 886377005885 DNA binding residues [nucleotide binding] 886377005886 B12 binding domain; Region: B12-binding_2; cl03653 886377005887 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 886377005888 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 886377005889 Mechanosensitive ion channel; Region: MS_channel; pfam00924 886377005890 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 886377005891 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 886377005892 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 886377005893 intersubunit interface [polypeptide binding]; other site 886377005894 active site 886377005895 catalytic residue [active] 886377005896 PAS domain S-box; Region: sensory_box; TIGR00229 886377005897 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 886377005898 putative active site [active] 886377005899 heme pocket [chemical binding]; other site 886377005900 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 886377005901 dimer interface [polypeptide binding]; other site 886377005902 phosphorylation site [posttranslational modification] 886377005903 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 886377005904 ATP binding site [chemical binding]; other site 886377005905 Mg2+ binding site [ion binding]; other site 886377005906 G-X-G motif; other site 886377005907 shikimate kinase; Reviewed; Region: aroK; PRK00131 886377005908 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 886377005909 ADP binding site [chemical binding]; other site 886377005910 magnesium binding site [ion binding]; other site 886377005911 putative shikimate binding site; other site 886377005912 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377005913 active site 886377005914 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 886377005915 RNA binding surface [nucleotide binding]; other site 886377005916 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 886377005917 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377005918 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 886377005919 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 886377005920 PYR/PP interface [polypeptide binding]; other site 886377005921 dimer interface [polypeptide binding]; other site 886377005922 TPP binding site [chemical binding]; other site 886377005923 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377005924 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 886377005925 TPP-binding site [chemical binding]; other site 886377005926 dimer interface [polypeptide binding]; other site 886377005927 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 886377005928 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 886377005929 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 886377005930 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 886377005931 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377005932 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 886377005933 replicative DNA helicase; Region: DnaB; TIGR00665 886377005934 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 886377005935 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 886377005936 Walker A motif; other site 886377005937 ATP binding site [chemical binding]; other site 886377005938 Walker B motif; other site 886377005939 DNA binding loops [nucleotide binding] 886377005940 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 886377005941 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; cl12031 886377005942 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 886377005943 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 886377005944 active site 886377005945 motif I; other site 886377005946 motif II; other site 886377005947 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377005948 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 886377005949 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 886377005950 23S rRNA binding site [nucleotide binding]; other site 886377005951 L21 binding site [polypeptide binding]; other site 886377005952 L13 binding site [polypeptide binding]; other site 886377005953 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 886377005954 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 886377005955 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 886377005956 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 886377005957 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 886377005958 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 886377005959 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 886377005960 active site 886377005961 dimer interface [polypeptide binding]; other site 886377005962 motif 1; other site 886377005963 motif 2; other site 886377005964 motif 3; other site 886377005965 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 886377005966 anticodon binding site; other site 886377005967 Haemolysin-III related; Region: HlyIII; cl03831 886377005968 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 886377005969 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 886377005970 THUMP domain; Region: THUMP; cl12076 886377005971 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; cl16911 886377005973 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 886377005974 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377005975 TRAM domain; Region: TRAM; cl01282 886377005976 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 886377005977 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 886377005978 S-adenosylmethionine binding site [chemical binding]; other site 886377005979 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 886377005980 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 886377005981 inhibitor-cofactor binding pocket; inhibition site 886377005982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377005983 catalytic residue [active] 886377005984 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377005985 PAS domain; Region: PAS_9; pfam13426 886377005986 putative active site [active] 886377005987 heme pocket [chemical binding]; other site 886377005988 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 886377005989 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377005990 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377005991 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 886377005992 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; cl12031 886377005993 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 886377005994 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 886377005995 Citrate transporter; Region: CitMHS; pfam03600 886377005996 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 886377005997 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377005998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377005999 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377006000 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377006001 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377006002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006003 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377006004 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377006005 nudix motif; other site 886377006006 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377006007 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006008 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006009 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; cl00284 886377006010 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; cl09108 886377006011 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; cl00284 886377006012 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377006013 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377006014 Family description; Region: VCBS; pfam13517 886377006015 Family description; Region: VCBS; pfam13517 886377006016 Family description; Region: VCBS; pfam13517 886377006017 Family description; Region: VCBS; pfam13517 886377006018 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 886377006019 Family description; Region: VCBS; pfam13517 886377006020 Family description; Region: VCBS; pfam13517 886377006021 Family description; Region: VCBS; pfam13517 886377006022 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 886377006023 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 886377006024 putative metal binding site [ion binding]; other site 886377006025 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 886377006026 homodimer interface [polypeptide binding]; other site 886377006027 substrate-cofactor binding pocket; other site 886377006028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006029 catalytic residue [active] 886377006030 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377006031 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; cl12031 886377006032 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 886377006033 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 886377006034 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 886377006035 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 886377006036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 886377006037 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 886377006038 UGMP family protein; Validated; Region: PRK09604 886377006039 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 886377006040 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 886377006041 Family of unknown function (DUF490); Region: DUF490; pfam04357 886377006042 Family of unknown function (DUF490); Region: DUF490; pfam04357 886377006043 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 886377006044 active site 886377006045 ADP/pyrophosphate binding site [chemical binding]; other site 886377006046 dimerization interface [polypeptide binding]; other site 886377006047 allosteric effector site; other site 886377006048 fructose-1,6-bisphosphate binding site; other site 886377006049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006050 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 886377006051 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 886377006052 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 886377006053 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 886377006054 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 886377006055 homotrimer interaction site [polypeptide binding]; other site 886377006056 putative active site [active] 886377006057 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 886377006058 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 886377006059 active site 886377006060 metal binding site [ion binding]; metal-binding site 886377006061 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 886377006062 mce related protein; Region: MCE; pfam02470 886377006063 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 886377006064 Cysteine-rich domain; Region: CCG; pfam02754 886377006065 Cysteine-rich domain; Region: CCG; pfam02754 886377006066 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 886377006067 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377006068 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006069 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 886377006070 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 886377006071 PrcB C-terminal; Region: PrcB_C; pfam14343 886377006072 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377006073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377006074 ligand binding site [chemical binding]; other site 886377006075 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377006076 Helix-turn-helix domains; Region: HTH; cl00088 886377006077 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006078 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 886377006079 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006080 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 886377006081 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 886377006082 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 886377006083 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 886377006084 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 886377006085 Cytochrome c; Region: Cytochrom_C; cl11414 886377006086 Cytochrome c; Region: Cytochrom_C; cl11414 886377006087 Cytochrome c; Region: Cytochrom_C; cl11414 886377006088 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 886377006089 putative ADP-binding pocket [chemical binding]; other site 886377006090 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 886377006091 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377006092 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006093 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 886377006094 putative ADP-binding pocket [chemical binding]; other site 886377006095 integral membrane protein MviN; Region: mviN; TIGR01695 886377006096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006097 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 886377006098 putative ADP-binding pocket [chemical binding]; other site 886377006099 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377006100 Pectate lyase; Region: Pec_lyase_C; cl01593 886377006101 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 886377006102 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 886377006103 putative NAD(P) binding site [chemical binding]; other site 886377006104 active site 886377006105 putative substrate binding site [chemical binding]; other site 886377006106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377006107 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 886377006108 putative ADP-binding pocket [chemical binding]; other site 886377006109 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 886377006110 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 886377006111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006112 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 886377006113 SLBB domain; Region: SLBB; pfam10531 886377006114 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 886377006115 Chain length determinant protein; Region: Wzz; cl15801 886377006116 Chain length determinant protein; Region: Wzz; cl15801 886377006117 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 886377006118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006119 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 886377006120 Nucleotide binding site [chemical binding]; other site 886377006121 DTAP/Switch II; other site 886377006122 Core-2/I-Branching enzyme; Region: Branch; pfam02485 886377006123 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006124 Cadherin repeat-like domain; Region: CA_like; cl15786 886377006125 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006126 epithiospecifier protein; Region: PLN02153 886377006127 Kelch motif; Region: Kelch_1; cl02701 886377006128 Kelch motif; Region: Kelch_1; cl02701 886377006129 Kelch motif; Region: Kelch_1; cl02701 886377006130 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 886377006131 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 886377006132 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377006133 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 886377006134 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 886377006135 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 886377006136 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377006137 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 886377006138 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 886377006139 Bacterial sugar transferase; Region: Bac_transf; cl00939 886377006140 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 886377006141 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 886377006142 Cadherin repeat-like domain; Region: CA_like; cl15786 886377006143 kelch-like protein; Provisional; Region: PHA03098 886377006144 Kelch motif; Region: Kelch_1; cl02701 886377006145 polycystin cation channel protein; Region: PCC; TIGR00864 886377006146 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377006147 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377006148 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377006149 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377006150 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 886377006151 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 886377006152 dimer interface [polypeptide binding]; other site 886377006153 phosphorylation site [posttranslational modification] 886377006154 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 886377006155 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 886377006156 ATP binding site [chemical binding]; other site 886377006157 Mg2+ binding site [ion binding]; other site 886377006158 G-X-G motif; other site 886377006159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377006160 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 886377006161 active site 886377006162 phosphorylation site [posttranslational modification] 886377006163 intermolecular recognition site; other site 886377006164 dimerization interface [polypeptide binding]; other site 886377006165 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 886377006166 DNA binding site [nucleotide binding] 886377006167 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 886377006168 Zn binding site [ion binding]; other site 886377006169 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 886377006170 metal binding site 2 [ion binding]; metal-binding site 886377006171 putative DNA binding helix; other site 886377006172 metal binding site 1 [ion binding]; metal-binding site 886377006173 dimer interface [polypeptide binding]; other site 886377006174 structural Zn2+ binding site [ion binding]; other site 886377006175 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 886377006176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006177 MerC mercury resistance protein; Region: MerC; cl03934 886377006178 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 886377006179 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 886377006180 dimer interface [polypeptide binding]; other site 886377006181 catalytic triad [active] 886377006182 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006183 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 886377006184 putative active site [active] 886377006185 Zn binding site [ion binding]; other site 886377006186 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1; cd01653 886377006187 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 886377006188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 886377006189 beta-phosphoglucomutase; Region: bPGM; TIGR01990 886377006190 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 886377006191 GMP synthase; Reviewed; Region: guaA; PRK00074 886377006192 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 886377006193 AMP/PPi binding site [chemical binding]; other site 886377006194 candidate oxyanion hole; other site 886377006195 catalytic triad [active] 886377006196 potential glutamine specificity residues [chemical binding]; other site 886377006197 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 886377006198 ATP Binding subdomain [chemical binding]; other site 886377006199 Ligand Binding sites [chemical binding]; other site 886377006200 Dimerization subdomain; other site 886377006201 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377006202 putative peptidoglycan binding site; other site 886377006203 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 886377006204 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377006205 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 886377006206 putative peptidoglycan binding site; other site 886377006207 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 886377006208 ligand binding site [chemical binding]; other site 886377006209 OsmC-like protein; Region: OsmC; cl00767 886377006210 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 886377006211 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 886377006212 CTP synthetase; Validated; Region: pyrG; PRK05380 886377006213 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 886377006214 Catalytic site [active] 886377006215 active site 886377006216 UTP binding site [chemical binding]; other site 886377006217 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 886377006218 active site 886377006219 putative oxyanion hole; other site 886377006220 catalytic triad [active] 886377006221 membrane protein insertase; Provisional; Region: PRK01318 886377006222 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 886377006223 Fasciclin domain; Region: Fasciclin; cl02663 886377006224 Fasciclin domain; Region: Fasciclin; cl02663 886377006225 Fasciclin domain; Region: Fasciclin; cl02663 886377006226 Fasciclin domain; Region: Fasciclin; cl02663 886377006227 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 886377006228 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 886377006229 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 886377006230 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 886377006231 FMN binding site [chemical binding]; other site 886377006232 substrate binding site [chemical binding]; other site 886377006233 putative catalytic residue [active] 886377006234 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377006235 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377006236 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377006237 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 886377006238 Walker A motif; other site 886377006239 ATP binding site [chemical binding]; other site 886377006240 Walker B motif; other site 886377006241 arginine finger; other site 886377006242 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 886377006243 Integral membrane protein DUF95; Region: DUF95; cl00572 886377006244 RDD family; Region: RDD; cl00746 886377006245 Predicted membrane protein [Function unknown]; Region: COG2860 886377006246 UPF0126 domain; Region: UPF0126; pfam03458 886377006247 UPF0126 domain; Region: UPF0126; pfam03458 886377006248 Bifunctional nuclease; Region: DNase-RNase; cl00553 886377006249 Dienelactone hydrolase family; Region: DLH; pfam01738 886377006250 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 886377006251 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 886377006252 active site 886377006253 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 886377006254 putative active site [active] 886377006255 putative CoA binding site [chemical binding]; other site 886377006256 nudix motif; other site 886377006257 metal binding site [ion binding]; metal-binding site 886377006258 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 886377006259 putative acyl-acceptor binding pocket; other site 886377006260 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377006261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006262 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377006263 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377006264 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377006265 putative metal binding site [ion binding]; other site 886377006266 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 886377006267 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377006268 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 886377006269 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377006270 active site 886377006271 Int/Topo IB signature motif; other site 886377006272 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 886377006273 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 886377006274 trimer interface [polypeptide binding]; other site 886377006275 active site 886377006276 dimer interface [polypeptide binding]; other site 886377006277 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 886377006278 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 886377006279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377006280 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 886377006281 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377006282 DinB superfamily; Region: DinB_2; pfam12867 886377006283 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 886377006284 SelR domain; Region: SelR; pfam01641 886377006285 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 886377006286 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 886377006287 glycogen branching enzyme; Provisional; Region: PRK12313 886377006288 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 886377006289 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 886377006290 active site 886377006291 catalytic site [active] 886377006292 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 886377006293 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 886377006294 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 886377006295 trimer interface [polypeptide binding]; other site 886377006296 active site 886377006297 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 886377006298 catalytic site [active] 886377006299 Peptidase family M48; Region: Peptidase_M48; cl12018 886377006300 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 886377006301 YdjC-like protein; Region: YdjC; cl01344 886377006302 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 886377006303 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 886377006304 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377006305 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006306 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 886377006307 DNA binding residues [nucleotide binding] 886377006308 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 886377006309 Found in ATP-dependent protease La (LON); Region: LON; smart00464 886377006310 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 886377006311 Walker A motif; other site 886377006312 ATP binding site [chemical binding]; other site 886377006313 Walker B motif; other site 886377006314 arginine finger; other site 886377006315 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 886377006316 cytidylate kinase; Provisional; Region: cmk; PRK00023 886377006317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006318 active site 886377006319 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 886377006320 CMP-binding site; other site 886377006321 The sites determining sugar specificity; other site 886377006322 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 886377006323 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 886377006324 non-specific DNA binding site [nucleotide binding]; other site 886377006325 salt bridge; other site 886377006326 sequence-specific DNA binding site [nucleotide binding]; other site 886377006327 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 886377006328 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 886377006329 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 886377006330 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 886377006331 putative peptidoglycan binding site; other site 886377006332 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 886377006333 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 886377006334 RNA binding site [nucleotide binding]; other site 886377006335 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 886377006336 RNA binding site [nucleotide binding]; other site 886377006337 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 886377006338 RNA binding site [nucleotide binding]; other site 886377006339 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 886377006340 RNA binding site [nucleotide binding]; other site 886377006341 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 886377006342 RNA binding site [nucleotide binding]; other site 886377006343 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 886377006344 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377006345 active site 886377006346 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 886377006347 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 886377006348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377006350 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 886377006351 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 886377006352 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 886377006353 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 886377006354 catalytic core [active] 886377006355 polyphosphate kinase; Provisional; Region: PRK05443 886377006356 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 886377006357 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 886377006358 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 886377006359 domain interface [polypeptide binding]; other site 886377006360 active site 886377006361 catalytic site [active] 886377006362 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 886377006363 domain interface [polypeptide binding]; other site 886377006364 active site 886377006365 catalytic site [active] 886377006366 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 886377006367 active site 886377006368 dinuclear metal binding site [ion binding]; other site 886377006369 dimerization interface [polypeptide binding]; other site 886377006370 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 886377006371 active site 886377006372 UbiA prenyltransferase family; Region: UbiA; cl00337 886377006373 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 886377006374 active site 886377006375 metal binding site [ion binding]; metal-binding site 886377006376 Sulfatase; Region: Sulfatase; cl10460 886377006377 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 886377006378 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 886377006379 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 886377006380 Walker A motif; other site 886377006381 ATP binding site [chemical binding]; other site 886377006382 Walker B motif; other site 886377006383 arginine finger; other site 886377006384 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 886377006385 Methyltransferase domain; Region: Methyltransf_31; pfam13847 886377006386 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 886377006387 S-adenosylmethionine binding site [chemical binding]; other site 886377006388 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 886377006389 Type IV pilin PilA; Region: Pilin_PilA; pfam14245 886377006390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006391 Family description; Region: UvrD_C_2; cl15862 886377006392 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 886377006393 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 886377006394 Ligand binding site; other site 886377006395 oligomer interface; other site 886377006396 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 886377006397 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 886377006398 motif II; other site 886377006399 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 886377006400 active site 886377006401 NAD binding site [chemical binding]; other site 886377006402 metal binding site [ion binding]; metal-binding site 886377006403 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 886377006404 putative acyl-acceptor binding pocket; other site 886377006405 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 886377006406 Transcriptional regulator; Region: Transcrip_reg; cl00361 886377006407 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 886377006408 aromatic arch; other site 886377006409 DCoH dimer interaction site [polypeptide binding]; other site 886377006410 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 886377006411 DCoH tetramer interaction site [polypeptide binding]; other site 886377006412 substrate binding site [chemical binding]; other site 886377006413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006414 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 886377006415 NAD(P) binding site [chemical binding]; other site 886377006416 active site 886377006417 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 886377006418 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 886377006419 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 886377006420 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 886377006421 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 886377006422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006423 catalytic residue [active] 886377006424 homoserine kinase; Provisional; Region: PRK01212 886377006425 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 886377006426 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 886377006427 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 886377006428 putative catalytic residues [active] 886377006429 putative nucleotide binding site [chemical binding]; other site 886377006430 putative aspartate binding site [chemical binding]; other site 886377006431 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 886377006432 dimer interface [polypeptide binding]; other site 886377006433 putative threonine allosteric regulatory site; other site 886377006434 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 886377006435 putative threonine allosteric regulatory site; other site 886377006436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006437 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 886377006438 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 886377006439 putative carbohydrate kinase; Provisional; Region: PRK10565 886377006440 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 886377006441 putative substrate binding site [chemical binding]; other site 886377006442 putative ATP binding site [chemical binding]; other site 886377006443 2',3'-cyclic nucleotide 3'-phosphodiesterase (CNP or CNPase); Region: CNPase; pfam05881 886377006444 Clp protease ATP binding subunit; Region: clpC; CHL00095 886377006445 Clp amino terminal domain; Region: Clp_N; pfam02861 886377006446 Clp amino terminal domain; Region: Clp_N; pfam02861 886377006447 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 886377006448 Walker A motif; other site 886377006449 ATP binding site [chemical binding]; other site 886377006450 Walker B motif; other site 886377006451 arginine finger; other site 886377006452 UvrB/uvrC motif; Region: UVR; pfam02151 886377006453 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 886377006454 Walker A motif; other site 886377006455 ATP binding site [chemical binding]; other site 886377006456 Walker B motif; other site 886377006457 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 886377006458 DNA gyrase subunit A; Validated; Region: PRK05560 886377006459 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 in DNA...; Region: TOP4c; cd00187 886377006460 CAP-like domain; other site 886377006461 active site 886377006462 primary dimer interface [polypeptide binding]; other site 886377006463 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006464 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006465 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006466 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006467 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006468 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 886377006469 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377006470 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 886377006471 binding surface 886377006472 TPR motif; other site 886377006473 NlpC/P60 family; Region: NLPC_P60; cl11438 886377006474 acetyl-CoA C-acetyltransferase; Region: PLN02644 886377006475 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 886377006476 dimer interface [polypeptide binding]; other site 886377006477 active site 886377006478 7TM-HD extracellular; Region: 7TMR-HDED; pfam07697 886377006479 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 886377006480 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 886377006481 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 886377006482 active site 886377006483 DNA binding site [nucleotide binding] 886377006484 Int/Topo IB signature motif; other site 886377006485 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 886377006486 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 886377006487 HlyD family secretion protein; Region: HlyD_2; pfam12700 886377006488 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377006489 Helix-turn-helix domains; Region: HTH; cl00088 886377006490 metal binding site 2 [ion binding]; metal-binding site 886377006491 putative DNA binding helix; other site 886377006492 metal binding site 1 [ion binding]; metal-binding site 886377006493 dimer interface [polypeptide binding]; other site 886377006494 structural Zn2+ binding site [ion binding]; other site 886377006495 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 886377006496 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 886377006497 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377006498 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 886377006499 MerT mercuric transport protein; Region: MerT; cl03578 886377006500 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 886377006501 metal-binding site [ion binding] 886377006502 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 886377006503 dimerization interface [polypeptide binding]; other site 886377006504 putative DNA binding site [nucleotide binding]; other site 886377006505 putative Zn2+ binding site [ion binding]; other site 886377006506 Domain of unknown function (DUF932); Region: DUF932; cl12129 886377006507 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 886377006508 dimer interface [polypeptide binding]; other site 886377006509 ssDNA binding site [nucleotide binding]; other site 886377006510 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377006511 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377006512 MPN+ (JAMM) motif; other site 886377006513 Zinc-binding site [ion binding]; other site 886377006514 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377006515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006516 Walker A motif; other site 886377006517 ATP binding site [chemical binding]; other site 886377006518 Walker B motif; other site 886377006519 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377006520 AAA-like domain; Region: AAA_10; pfam12846 886377006521 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 886377006522 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 886377006523 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 886377006524 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 886377006525 S-adenosylmethionine binding site [chemical binding]; other site 886377006526 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 886377006527 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; cl16911 886377006528 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; cl16911 886377006529 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 886377006530 non-specific DNA binding site [nucleotide binding]; other site 886377006531 salt bridge; other site 886377006532 sequence-specific DNA binding site [nucleotide binding]; other site 886377006533 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377006534 NAD-dependent DNA ligase LigA; Provisional; Region: ligA; PRK14350 886377006535 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006536 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006537 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; cl00284 886377006538 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377006539 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 886377006540 active site 886377006541 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377006542 PAS domain; Region: PAS_9; pfam13426 886377006543 putative active site [active] 886377006544 heme pocket [chemical binding]; other site 886377006545 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377006546 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377006547 RteC protein; Region: RteC; pfam09357 886377006548 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 886377006549 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 886377006550 hypothetical protein; Validated; Region: PRK08116 886377006551 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006552 CAAX protease self-immunity; Region: Abi; cl00558 886377006553 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006555 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006557 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006558 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 886377006559 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006560 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377006561 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377006563 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377006564 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 886377006565 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 886377006566 active site 886377006567 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377006568 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 886377006569 active site 886377006570 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 886377006571 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 886377006572 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 886377006573 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006574 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006575 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006576 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006577 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 886377006578 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006579 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 886377006580 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006581 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 886377006582 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 886377006583 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 886377006584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006585 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 886377006586 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377006587 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 886377006588 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 886377006589 putative NAD(P) binding site [chemical binding]; other site 886377006590 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 886377006591 PAS fold; Region: PAS_3; pfam08447 886377006592 putative active site [active] 886377006593 heme pocket [chemical binding]; other site 886377006594 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 886377006595 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 886377006596 Substrate binding site [chemical binding]; other site 886377006597 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 886377006598 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006599 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 886377006600 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 886377006601 structural tetrad; other site 886377006602 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 886377006603 non-specific DNA binding site [nucleotide binding]; other site 886377006604 salt bridge; other site 886377006605 sequence-specific DNA binding site [nucleotide binding]; other site 886377006606 Tic20-like protein; Region: Tic20; pfam09685 886377006607 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006608 FtsX-like permease family; Region: FtsX; cl15850 886377006609 FtsX-like permease family; Region: FtsX; cl15850 886377006610 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 886377006611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006612 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006614 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 886377006615 active site 886377006616 metal binding site [ion binding]; metal-binding site 886377006617 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 886377006618 Domain of unknown function, B. Theta Gene description (DUF3875); Region: DUF3875; pfam12991 886377006619 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377006620 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 886377006621 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 886377006622 Bacteroides conjugative transposon TraN protein; Region: Bac_Flav_CT_N; TIGR03780 886377006623 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 886377006624 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377006625 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 886377006626 active site 886377006627 phosphorylation site [posttranslational modification] 886377006628 intermolecular recognition site; other site 886377006629 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 886377006630 Sel1 repeat; Region: Sel1; cl02723 886377006631 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377006632 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 886377006633 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 886377006634 Int/Topo IB signature motif; other site 886377006635 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 886377006636 Clp protease; Region: CLP_protease; pfam00574 886377006637 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 886377006638 oligomer interface [polypeptide binding]; other site 886377006639 active site residues [active] 886377006640 ParB-like nuclease domain; Region: ParBc; cl02129 886377006641 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 886377006642 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 886377006643 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 886377006644 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 886377006645 active site 886377006646 DNA binding site [nucleotide binding] 886377006647 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 886377006648 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 886377006649 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 886377006650 generic binding surface I; other site 886377006651 generic binding surface II; other site 886377006652 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 886377006653 dimer interface [polypeptide binding]; other site 886377006654 ssDNA binding site [nucleotide binding]; other site 886377006655 tetramer (dimer of dimers) interface [polypeptide binding]; other site 886377006656 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377006657 MPN+ (JAMM) motif; other site 886377006658 Zinc-binding site [ion binding]; other site 886377006659 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006660 Walker A motif; other site 886377006661 ATP binding site [chemical binding]; other site 886377006662 Walker B motif; other site 886377006663 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 886377006664 binding surface 886377006665 TPR motif; other site 886377006666 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377006667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377006668 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377006669 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006670 Uncharacterized conserved protein [Function unknown]; Region: COG4748 886377006671 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377006672 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 886377006673 putative active site [active] 886377006674 putative catalytic site [active] 886377006675 putative Mg binding site IVb [ion binding]; other site 886377006676 putative phosphate binding site [ion binding]; other site 886377006677 putative DNA binding site [nucleotide binding]; other site 886377006678 putative Mg binding site IVa [ion binding]; other site 886377006679 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; cl16911 886377006680 cofactor binding site; other site 886377006681 DNA binding site [nucleotide binding] 886377006682 substrate interaction site [chemical binding]; other site 886377006683 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; cl16911 886377006684 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 886377006685 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; cl16911 886377006686 Protein of unknown function DUF262; Region: DUF262; cl14890 886377006687 Protein of unknown function DUF262; Region: DUF262; cl14890 886377006688 DDE superfamily endonuclease; Region: DDE_4; cl15789 886377006689 DDE superfamily endonuclease; Region: DDE_4; cl15789 886377006690 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 886377006691 non-specific DNA binding site [nucleotide binding]; other site 886377006692 salt bridge; other site 886377006693 sequence-specific DNA binding site [nucleotide binding]; other site 886377006694 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006695 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006696 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; cl00284 886377006697 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377006698 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 886377006699 active site 886377006700 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 886377006701 putative active site [active] 886377006702 heme pocket [chemical binding]; other site 886377006703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377006704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377006705 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 886377006706 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 886377006707 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377006708 catalytic residue [active] 886377006709 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377006710 RteC protein; Region: RteC; pfam09357 886377006711 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 886377006712 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377006713 hypothetical protein; Validated; Region: PRK08116 886377006714 Walker A/P-loop; other site 886377006715 ATP binding site [chemical binding]; other site 886377006716 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 886377006717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006718 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 886377006719 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 886377006720 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377006721 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 886377006722 motif II; other site 886377006723 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; cl15243 886377006724 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 886377006725 substrate binding site [chemical binding]; other site 886377006726 dimer interface [polypeptide binding]; other site 886377006727 ATP binding site [chemical binding]; other site 886377006728 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 886377006729 thiamine phosphate binding site [chemical binding]; other site 886377006730 active site 886377006731 pyrophosphate binding site [ion binding]; other site 886377006732 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 886377006733 substrate binding site [chemical binding]; other site 886377006734 multimerization interface [polypeptide binding]; other site 886377006735 ATP binding site [chemical binding]; other site 886377006736 Bacteroides conjugation system ATPase, TraG family; Region: Bac_Flav_CT_G; TIGR03783 886377006737 Domain of unknown function DUF87; Region: DUF87; pfam01935 886377006738 Bacteroides conjugative transposon TraK protein; Region: Bac_Flav_CT_K; TIGR03781 886377006739 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 886377006740 Domain of unknown function (DUF4138); Region: DUF4138; pfam13595 886377006742 Protein of unknown function, DUF481; Region: DUF481; cl01213 886377006743 YceI-like domain; Region: YceI; cl01001 886377006744 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 886377006745 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377006746 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377006747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 886377006748 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 886377006749 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 886377006750 YceI-like domain; Region: YceI; cl01001 886377006751 Predicted membrane protein [Function unknown]; Region: COG3748 886377006752 LytTr DNA-binding domain; Region: LytTR; cl04498 886377006753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 886377006754 Helix-turn-helix domains; Region: HTH; cl00088 886377006755 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 886377006756 dimerization interface [polypeptide binding]; other site 886377006757 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377006758 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377006759 dimer interface [polypeptide binding]; other site 886377006760 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377006761 catalytic triad [active] 886377006762 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 886377006763 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 886377006764 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 886377006765 FAD binding pocket [chemical binding]; other site 886377006766 FAD binding motif [chemical binding]; other site 886377006767 catalytic residues [active] 886377006768 NAD binding pocket [chemical binding]; other site 886377006769 phosphate binding motif [ion binding]; other site 886377006770 beta-alpha-beta structure motif; other site 886377006771 sulfite reductase subunit beta; Provisional; Region: PRK13504 886377006772 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377006773 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377006774 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 886377006775 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 886377006776 homodimer interface [polypeptide binding]; other site 886377006777 substrate-cofactor binding pocket; other site 886377006778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006779 catalytic residue [active] 886377006780 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 886377006781 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 886377006782 homodimer interface [polypeptide binding]; other site 886377006783 substrate-cofactor binding pocket; other site 886377006784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377006785 catalytic residue [active] 886377006786 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 886377006787 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006788 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 886377006789 Susd and RagB outer membrane lipoprotein; Region: SusD-like; pfam12741 886377006790 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377006791 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006792 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006793 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; cl00284 886377006794 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; cl00284 886377006795 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377006796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377006797 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377006798 heme-binding site [chemical binding]; other site 886377006799 Protein of unknown function, DUF488; Region: DUF488; cl01246 886377006800 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 886377006801 classical (c) SDRs; Region: SDR_c; cd05233 886377006802 NAD(P) binding site [chemical binding]; other site 886377006803 active site 886377006804 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377006805 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 886377006806 OsmC-like protein; Region: OsmC; cl00767 886377006807 aconitate hydratase; Validated; Region: PRK09277 886377006808 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377006809 substrate binding site [chemical binding]; other site 886377006810 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377006811 ligand binding site [chemical binding]; other site 886377006812 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 886377006813 substrate binding site [chemical binding]; other site 886377006814 Cupin domain; Region: Cupin_2; cl09118 886377006815 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 886377006816 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377006817 heme-binding site [chemical binding]; other site 886377006818 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 886377006819 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 886377006820 Cytochrome c; Region: Cytochrom_C; cl11414 886377006821 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377006822 Low-spin heme binding site [chemical binding]; other site 886377006823 D-pathway; other site 886377006824 Putative water exit pathway; other site 886377006825 Binuclear center (active site) [active] 886377006826 K-pathway; other site 886377006827 Putative proton exit pathway; other site 886377006828 RNA polymerase sigma factor; Provisional; Region: PRK11922 886377006829 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006830 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 886377006831 DNA binding residues [nucleotide binding] 886377006832 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 886377006833 FAD binding pocket [chemical binding]; other site 886377006834 conserved FAD binding motif [chemical binding]; other site 886377006835 phosphate binding motif [ion binding]; other site 886377006836 beta-alpha-beta structure motif; other site 886377006837 NAD binding pocket [chemical binding]; other site 886377006838 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377006839 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377006840 active site 886377006841 Domain of unknown function (DUF305); Region: DUF305; cl15795 886377006842 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 886377006843 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 886377006844 CAAX protease self-immunity; Region: Abi; cl00558 886377006845 ResB-like family; Region: ResB; pfam05140 886377006846 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 886377006847 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 886377006848 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 886377006849 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377006850 catalytic residue [active] 886377006851 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 886377006852 FAD binding pocket [chemical binding]; other site 886377006853 conserved FAD binding motif [chemical binding]; other site 886377006854 phosphate binding motif [ion binding]; other site 886377006855 beta-alpha-beta structure motif; other site 886377006856 NAD binding pocket [chemical binding]; other site 886377006857 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377006858 heme-binding site [chemical binding]; other site 886377006859 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 886377006861 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 886377006863 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377006864 Helix-turn-helix domains; Region: HTH; cl00088 886377006865 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 886377006866 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 886377006867 Cl- selectivity filter; other site 886377006868 Cl- binding residues [ion binding]; other site 886377006869 pore gating glutamate residue; other site 886377006870 dimer interface [polypeptide binding]; other site 886377006871 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 886377006872 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377006873 catalytic residue [active] 886377006874 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 886377006875 Cu(I) binding site [ion binding]; other site 886377006876 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 886377006877 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 886377006878 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 886377006879 Cytochrome c; Region: Cytochrom_C; cl11414 886377006880 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 886377006881 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 886377006882 conserved cys residue [active] 886377006883 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006884 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 886377006885 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 886377006886 FOG: PKD repeat [General function prediction only]; Region: COG3291 886377006887 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377006888 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006889 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 886377006890 DNA binding residues [nucleotide binding] 886377006891 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377006892 FecR protein; Region: FecR; pfam04773 886377006893 Secretin and TonB N terminus short domain; Region: STN; cl06624 886377006894 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006895 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006896 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; cl00284 886377006897 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; cl00284 886377006898 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377006899 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377006900 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 886377006901 Cytochrome c; Region: Cytochrom_C; cl11414 886377006902 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 886377006903 classical (c) SDRs; Region: SDR_c; cd05233 886377006904 NAD(P) binding site [chemical binding]; other site 886377006905 active site 886377006906 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 886377006907 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; cl09108 886377006908 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 886377006909 phosphate binding site [ion binding]; other site 886377006910 phosphoenolpyruvate synthase; Validated; Region: PRK06464 886377006911 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377006912 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 886377006913 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; cl09155 886377006914 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 886377006915 putative substrate translocation pore; other site 886377006917 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 886377006918 non-specific DNA binding site [nucleotide binding]; other site 886377006919 salt bridge; other site 886377006920 sequence-specific DNA binding site [nucleotide binding]; other site 886377006921 HipA N-terminal domain; Region: Couple_hipA; cl11853 886377006922 HipA-like N-terminal domain; Region: HipA_N; pfam07805 886377006923 HipA-like C-terminal domain; Region: HipA_C; pfam07804 886377006924 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 886377006925 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377006926 Zn binding site [ion binding]; other site 886377006927 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 886377006928 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 886377006929 Walker A/P-loop; other site 886377006930 ATP binding site [chemical binding]; other site 886377006931 Q-loop/lid; other site 886377006932 ABC transporter signature motif; other site 886377006933 Walker B; other site 886377006934 D-loop; other site 886377006935 H-loop/switch region; other site 886377006936 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 886377006937 non-specific DNA binding site [nucleotide binding]; other site 886377006938 salt bridge; other site 886377006939 sequence-specific DNA binding site [nucleotide binding]; other site 886377006941 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 886377006942 dimer interface [polypeptide binding]; other site 886377006943 FMN binding site [chemical binding]; other site 886377006944 Protein of unknown function, DUF606; Region: DUF606; cl01273 886377006945 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377006946 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 886377006947 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 886377006948 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 886377006949 active site 886377006950 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 886377006951 putative substrate binding pocket [chemical binding]; other site 886377006952 trimer interface [polypeptide binding]; other site 886377006953 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; cl12031 886377006954 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 886377006955 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 886377006956 potential catalytic triad [active] 886377006957 conserved cys residue [active] 886377006958 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377006959 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 886377006960 DoxX; Region: DoxX; cl00976 886377006961 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377006962 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 886377006963 ligand binding site [chemical binding]; other site 886377006964 flexible hinge region; other site 886377006965 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 886377006966 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 886377006967 ligand binding site [chemical binding]; other site 886377006968 flexible hinge region; other site 886377006969 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 886377006970 dimer interface [polypeptide binding]; other site 886377006971 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377006972 ligand binding site [chemical binding]; other site 886377006974 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377006975 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377006976 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377006977 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 886377006978 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377006979 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377006980 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377006981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377006982 NAD(P) binding site [chemical binding]; other site 886377006983 active site 886377006985 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 886377006986 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 886377006987 active site 886377006988 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 886377006989 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377006990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377006991 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 886377006992 DNA binding residues [nucleotide binding] 886377006993 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377006994 FecR protein; Region: FecR; pfam04773 886377006995 Secretin and TonB N terminus short domain; Region: STN; cl06624 886377006996 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377006997 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377006998 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; cl00284 886377006999 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; cl00284 886377007000 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377007001 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377007002 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 886377007003 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 886377007004 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 886377007005 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 886377007006 active site 886377007007 Proline dehydrogenase; Region: Pro_dh; cl03282 886377007008 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 886377007009 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 886377007010 Glutamate binding site [chemical binding]; other site 886377007011 NAD binding site [chemical binding]; other site 886377007012 catalytic residues [active] 886377007014 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 886377007015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007016 Histidine kinase; Region: HisKA_3; pfam07730 886377007017 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 886377007018 ATP binding site [chemical binding]; other site 886377007019 Mg2+ binding site [ion binding]; other site 886377007020 G-X-G motif; other site 886377007021 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 886377007022 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 886377007023 nitrite reductase subunit NirD; Provisional; Region: PRK14989 886377007024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377007026 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 886377007027 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 886377007028 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 886377007029 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 886377007030 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 886377007031 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 886377007032 putative substrate translocation pore; other site 886377007033 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 886377007034 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377007035 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 886377007036 active site 886377007037 phosphorylation site [posttranslational modification] 886377007038 intermolecular recognition site; other site 886377007039 dimerization interface [polypeptide binding]; other site 886377007040 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 886377007041 DNA binding residues [nucleotide binding] 886377007042 dimerization interface [polypeptide binding]; other site 886377007043 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 886377007044 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 886377007045 [4Fe-4S] binding site [ion binding]; other site 886377007046 molybdopterin cofactor binding site; other site 886377007047 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 886377007048 molybdopterin cofactor binding site; other site 886377007049 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 886377007050 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377007051 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 886377007052 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 886377007053 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 886377007054 Rubredoxin; Region: Rubredoxin; pfam00301 886377007055 iron binding site [ion binding]; other site 886377007058 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377007059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007060 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377007061 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377007062 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007063 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007064 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 886377007065 DNA binding residues [nucleotide binding] 886377007066 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 886377007067 nudix motif; other site 886377007068 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377007069 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 886377007070 putative D-mannonate oxidoreductase, classical (c) SDR; Region: mannonate_red_SDR_c; cd08935 886377007071 putative NAD(P) binding site [chemical binding]; other site 886377007072 active site 886377007073 mannonate dehydratase; Region: uxuA; TIGR00695 886377007074 mannonate dehydratase; Provisional; Region: PRK03906 886377007075 Glucuronate isomerase; Region: UxaC; cl00829 886377007076 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 886377007077 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 886377007078 substrate binding site [chemical binding]; other site 886377007079 ATP binding site [chemical binding]; other site 886377007080 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 886377007081 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 886377007082 active site 886377007083 intersubunit interface [polypeptide binding]; other site 886377007084 catalytic residue [active] 886377007085 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 886377007086 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 886377007087 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 886377007088 DctM-like transporters; Region: DctM; pfam06808 886377007089 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 886377007090 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377007091 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377007092 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007094 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007096 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377007097 Transcriptional regulators [Transcription]; Region: MarR; COG1846 886377007098 Helix-turn-helix domains; Region: HTH; cl00088 886377007099 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 886377007100 putative active site pocket [active] 886377007101 dimerization interface [polypeptide binding]; other site 886377007102 putative catalytic residue [active] 886377007103 Domain of unknown function (DUF2024); Region: DUF2024; pfam09630 886377007104 putative transporter; Provisional; Region: PRK11660 886377007105 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377007106 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377007107 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 886377007109 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377007110 nudix motif; other site 886377007111 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 886377007112 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; cl12031 886377007113 Carboxylesterase family; Region: COesterase; pfam00135 886377007114 substrate binding pocket [chemical binding]; other site 886377007115 catalytic triad [active] 886377007116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 886377007117 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 886377007119 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 886377007120 ligand binding site [chemical binding]; other site 886377007121 flexible hinge region; other site 886377007122 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 886377007123 PAS fold; Region: PAS_3; pfam08447 886377007124 putative active site [active] 886377007125 heme pocket [chemical binding]; other site 886377007126 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 886377007127 PAS domain; Region: PAS_9; pfam13426 886377007128 putative active site [active] 886377007129 heme pocket [chemical binding]; other site 886377007130 GAF domain; Region: GAF_2; pfam13185 886377007131 GAF domain; Region: GAF; cl15785 886377007132 PAS domain S-box; Region: sensory_box; TIGR00229 886377007133 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 886377007134 putative active site [active] 886377007135 heme pocket [chemical binding]; other site 886377007136 PAS domain; Region: PAS_9; pfam13426 886377007137 putative diguanylate cyclase; Provisional; Region: PRK09776 886377007138 PAS fold; Region: PAS_4; pfam08448 886377007139 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 886377007140 putative active site [active] 886377007141 heme pocket [chemical binding]; other site 886377007142 PAS fold; Region: PAS_4; pfam08448 886377007143 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 886377007144 putative active site [active] 886377007145 heme pocket [chemical binding]; other site 886377007146 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377007147 GAF domain; Region: GAF; cl15785 886377007148 PAS fold; Region: PAS_4; pfam08448 886377007149 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 886377007150 putative active site [active] 886377007151 heme pocket [chemical binding]; other site 886377007152 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 886377007153 PAS fold; Region: PAS_3; pfam08447 886377007154 putative active site [active] 886377007155 heme pocket [chemical binding]; other site 886377007156 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 886377007157 dimer interface [polypeptide binding]; other site 886377007158 phosphorylation site [posttranslational modification] 886377007159 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 886377007160 ATP binding site [chemical binding]; other site 886377007161 Mg2+ binding site [ion binding]; other site 886377007162 G-X-G motif; other site 886377007163 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007164 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 886377007165 active site 886377007166 phosphorylation site [posttranslational modification] 886377007167 intermolecular recognition site; other site 886377007168 dimerization interface [polypeptide binding]; other site 886377007169 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 886377007170 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 886377007171 active site 886377007172 phosphorylation site [posttranslational modification] 886377007173 intermolecular recognition site; other site 886377007174 dimerization interface [polypeptide binding]; other site 886377007175 PAS domain S-box; Region: sensory_box; TIGR00229 886377007176 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377007177 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007178 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 886377007179 active site 886377007180 phosphorylation site [posttranslational modification] 886377007181 intermolecular recognition site; other site 886377007182 dimerization interface [polypeptide binding]; other site 886377007183 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 886377007184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007185 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 886377007186 dimer interface [polypeptide binding]; other site 886377007187 phosphorylation site [posttranslational modification] 886377007188 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 886377007189 ATP binding site [chemical binding]; other site 886377007190 Mg2+ binding site [ion binding]; other site 886377007191 G-X-G motif; other site 886377007192 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 886377007193 GAF domain; Region: GAF; cl15785 886377007194 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 886377007195 dimer interface [polypeptide binding]; other site 886377007196 phosphorylation site [posttranslational modification] 886377007197 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 886377007198 ATP binding site [chemical binding]; other site 886377007199 Mg2+ binding site [ion binding]; other site 886377007200 G-X-G motif; other site 886377007201 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377007202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007203 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 886377007204 DNA binding residues [nucleotide binding] 886377007205 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377007206 FecR protein; Region: FecR; pfam04773 886377007207 Secretin and TonB N terminus short domain; Region: STN; cl06624 886377007208 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007209 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007210 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; cl00284 886377007211 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; cl00284 886377007212 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377007213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007214 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 886377007215 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 886377007216 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 886377007217 Helix-turn-helix domains; Region: HTH; cl00088 886377007218 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377007219 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007220 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377007221 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377007222 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377007223 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377007224 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377007225 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377007226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 886377007227 Putative glucoamylase; Region: Glycoamylase; pfam10091 886377007228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 886377007229 Putative glucoamylase; Region: Glycoamylase; pfam10091 886377007230 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; cl12031 886377007231 Predicted esterase [General function prediction only]; Region: COG0400 886377007232 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; cl12031 886377007233 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 886377007234 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 886377007235 Fibronectin type III-like domain; Region: Fn3-like; cl15273 886377007236 Sulfatase; Region: Sulfatase; cl10460 886377007237 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 886377007238 Integral membrane protein TerC family; Region: TerC; cl10468 886377007239 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007240 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 886377007241 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 886377007242 N-terminal plug; other site 886377007243 ligand-binding site [chemical binding]; other site 886377007244 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007245 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 886377007246 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 886377007247 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 886377007248 active site 886377007249 catalytic tetrad [active] 886377007250 NIPSNAP; Region: NIPSNAP; pfam07978 886377007251 NIPSNAP; Region: NIPSNAP; pfam07978 886377007252 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 886377007253 heme-binding site [chemical binding]; other site 886377007254 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 886377007255 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 886377007256 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 886377007257 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377007258 Helix-turn-helix domains; Region: HTH; cl00088 886377007259 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 886377007260 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 886377007261 Walker A/P-loop; other site 886377007262 ATP binding site [chemical binding]; other site 886377007263 Q-loop/lid; other site 886377007264 ABC transporter signature motif; other site 886377007265 Walker B; other site 886377007266 D-loop; other site 886377007267 H-loop/switch region; other site 886377007268 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 886377007269 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 886377007270 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 886377007271 NosL; Region: NosL; cl01769 886377007272 nitrous-oxide reductase; Validated; Region: PRK02888 886377007273 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 886377007274 Fasciclin domain; Region: Fasciclin; cl02663 886377007275 Cytochrome c; Region: Cytochrom_C; cl11414 886377007276 Predicted transcriptional regulator [Transcription]; Region: COG1959 886377007277 Helix-turn-helix domains; Region: HTH; cl00088 886377007278 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 886377007279 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 886377007280 GTP binding site; other site 886377007281 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; cl12031 886377007282 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 886377007283 substrate binding pocket [chemical binding]; other site 886377007284 catalytic triad [active] 886377007285 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 886377007286 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 886377007287 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 886377007288 putative DNA binding site [nucleotide binding]; other site 886377007289 dimerization interface [polypeptide binding]; other site 886377007290 putative Zn2+ binding site [ion binding]; other site 886377007291 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007293 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 886377007294 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377007295 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377007296 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 886377007297 active site 886377007298 catalytic triad [active] 886377007299 oxyanion hole [active] 886377007300 switch loop; other site 886377007301 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 886377007302 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377007303 Walker A/P-loop; other site 886377007304 ATP binding site [chemical binding]; other site 886377007305 Q-loop/lid; other site 886377007306 ABC transporter signature motif; other site 886377007307 Walker B; other site 886377007308 D-loop; other site 886377007309 H-loop/switch region; other site 886377007310 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 886377007311 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 886377007312 FtsX-like permease family; Region: FtsX; cl15850 886377007313 FtsX-like permease family; Region: FtsX; cl15850 886377007314 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377007315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377007316 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377007317 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377007318 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 886377007319 Protein export membrane protein; Region: SecD_SecF; cl14618 886377007320 ATP cone domain; Region: ATP-cone; pfam03477 886377007321 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 886377007322 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377007323 Beta-Casp domain; Region: Beta-Casp; cl12567 886377007324 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 886377007325 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 886377007326 active site 886377007327 chaperone protein DnaJ; Provisional; Region: PRK14299 886377007328 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 886377007329 HSP70 interaction site [polypeptide binding]; other site 886377007330 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 886377007331 substrate binding site [polypeptide binding]; other site 886377007332 dimer interface [polypeptide binding]; other site 886377007333 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 886377007334 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 886377007335 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 886377007336 Ligand Binding Site [chemical binding]; other site 886377007337 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 886377007338 Ligand Binding Site [chemical binding]; other site 886377007339 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 886377007340 PAS domain; Region: PAS_9; pfam13426 886377007341 putative active site [active] 886377007342 heme pocket [chemical binding]; other site 886377007343 PAS domain S-box; Region: sensory_box; TIGR00229 886377007344 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377007345 putative active site [active] 886377007346 heme pocket [chemical binding]; other site 886377007347 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 886377007348 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 886377007349 ATP binding site [chemical binding]; other site 886377007350 Mg2+ binding site [ion binding]; other site 886377007351 G-X-G motif; other site 886377007352 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007353 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 886377007354 active site 886377007355 phosphorylation site [posttranslational modification] 886377007356 intermolecular recognition site; other site 886377007357 dimerization interface [polypeptide binding]; other site 886377007358 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007359 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 886377007360 ligand binding site [chemical binding]; other site 886377007361 flexible hinge region; other site 886377007362 Helix-turn-helix domains; Region: HTH; cl00088 886377007363 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 886377007364 Ligand Binding Site [chemical binding]; other site 886377007365 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 886377007366 Ligand Binding Site [chemical binding]; other site 886377007367 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 886377007368 Ligand Binding Site [chemical binding]; other site 886377007369 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 886377007370 Ligand Binding Site [chemical binding]; other site 886377007371 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 886377007372 Ligand Binding Site [chemical binding]; other site 886377007373 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 886377007374 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 886377007375 Ligand Binding Site [chemical binding]; other site 886377007376 eRF1 domain 2; Region: eRF1_2; pfam03464 886377007377 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 886377007378 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 886377007379 putative dimer interface [polypeptide binding]; other site 886377007380 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 886377007381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007382 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 886377007383 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 886377007384 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 886377007385 putative active site [active] 886377007386 catalytic site [active] 886377007387 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 886377007388 putative active site [active] 886377007389 catalytic site [active] 886377007390 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 886377007391 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 886377007392 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 886377007393 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 886377007394 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 886377007395 MoxR-like ATPases [General function prediction only]; Region: COG0714 886377007396 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 886377007397 Walker A motif; other site 886377007398 ATP binding site [chemical binding]; other site 886377007399 Walker B motif; other site 886377007400 arginine finger; other site 886377007401 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377007402 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 886377007403 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 886377007404 Cation efflux family; Region: Cation_efflux; cl00316 886377007405 pyruvate phosphate dikinase; Provisional; Region: PRK09279 886377007406 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 886377007407 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 886377007408 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; cl09155 886377007409 YceI-like domain; Region: YceI; cl01001 886377007410 YceI-like domain; Region: YceI; cl01001 886377007411 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 886377007412 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 886377007413 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 886377007414 active site 886377007415 catalytic tetrad [active] 886377007416 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 886377007417 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 886377007418 putative substrate translocation pore; other site 886377007419 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 886377007420 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 886377007421 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 886377007422 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 886377007423 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 886377007424 catalytic loop [active] 886377007425 iron binding site [ion binding]; other site 886377007426 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 886377007427 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 886377007428 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377007429 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 886377007430 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 886377007431 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 886377007432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007433 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 886377007434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377007435 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_16; cd07263 886377007436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007437 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007439 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 886377007440 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 886377007441 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 886377007442 dimerization interface [polypeptide binding]; other site 886377007443 putative DNA binding site [nucleotide binding]; other site 886377007444 putative Zn2+ binding site [ion binding]; other site 886377007445 Helix-turn-helix domains; Region: HTH; cl00088 886377007446 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 886377007447 Helix-turn-helix domains; Region: HTH; cl00088 886377007448 DoxX; Region: DoxX; cl00976 886377007449 Uncharacterized protein conserved in bacteria (DUF2200); Region: DUF2200; cl02047 886377007450 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377007451 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 886377007452 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007454 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 886377007455 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 886377007456 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 886377007457 active site 886377007458 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 886377007459 binding surface 886377007460 TPR motif; other site 886377007461 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377007462 Sulfatase; Region: Sulfatase; cl10460 886377007463 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 886377007464 PAS domain S-box; Region: sensory_box; TIGR00229 886377007465 putative diguanylate cyclase; Provisional; Region: PRK09776 886377007466 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 886377007467 PAS fold; Region: PAS_4; pfam08448 886377007468 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 886377007469 putative active site [active] 886377007470 heme pocket [chemical binding]; other site 886377007471 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 886377007472 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 886377007473 dimer interface [polypeptide binding]; other site 886377007474 phosphorylation site [posttranslational modification] 886377007475 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 886377007476 ATP binding site [chemical binding]; other site 886377007477 Mg2+ binding site [ion binding]; other site 886377007478 G-X-G motif; other site 886377007479 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 886377007480 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007481 active site 886377007482 phosphorylation site [posttranslational modification] 886377007483 intermolecular recognition site; other site 886377007484 dimerization interface [polypeptide binding]; other site 886377007485 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007486 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 886377007487 active site 886377007488 phosphorylation site [posttranslational modification] 886377007489 intermolecular recognition site; other site 886377007490 dimerization interface [polypeptide binding]; other site 886377007491 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 886377007492 Response regulator receiver domain; Region: Response_reg; pfam00072 886377007493 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 886377007494 active site 886377007495 phosphorylation site [posttranslational modification] 886377007496 intermolecular recognition site; other site 886377007497 dimerization interface [polypeptide binding]; other site 886377007498 HEAT repeats; Region: HEAT_2; pfam13646 886377007499 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 886377007500 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 886377007501 DXD motif; other site 886377007502 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 886377007503 Two component regulator propeller; Region: Reg_prop; pfam07494 886377007504 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 886377007505 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 886377007506 dimer interface [polypeptide binding]; other site 886377007507 phosphorylation site [posttranslational modification] 886377007508 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 886377007509 ATP binding site [chemical binding]; other site 886377007510 Mg2+ binding site [ion binding]; other site 886377007511 G-X-G motif; other site 886377007513 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 886377007514 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 886377007515 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 886377007516 active site 886377007517 Rrf2 family protein; Region: rrf2_super; TIGR00738 886377007518 Helix-turn-helix domains; Region: HTH; cl00088 886377007519 Quinolinate synthetase A protein; Region: NadA; cl00420 886377007520 L-aspartate oxidase; Provisional; Region: PRK09077 886377007521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007522 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 886377007523 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 886377007524 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 886377007525 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 886377007527 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 886377007528 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 886377007529 non-specific DNA binding site [nucleotide binding]; other site 886377007530 salt bridge; other site 886377007531 sequence-specific DNA binding site [nucleotide binding]; other site 886377007532 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 886377007533 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 886377007534 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 886377007535 trmE is a tRNA modification GTPase; Region: trmE; cd04164 886377007536 G1 box; other site 886377007537 GTP/Mg2+ binding site [chemical binding]; other site 886377007538 Switch I region; other site 886377007539 G2 box; other site 886377007540 Switch II region; other site 886377007541 G3 box; other site 886377007542 G4 box; other site 886377007543 G5 box; other site 886377007544 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 886377007545 Tic20-like protein; Region: Tic20; pfam09685 886377007546 DNA polymerase III subunit beta; Validated; Region: PRK05643 886377007547 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 886377007548 putative DNA binding surface [nucleotide binding]; other site 886377007549 dimer interface [polypeptide binding]; other site 886377007550 beta-clamp/clamp loader binding surface; other site 886377007551 beta-clamp/translesion DNA polymerase binding surface; other site 886377007552 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 886377007553 ABC-2 type transporter; Region: ABC2_membrane; cl11417 886377007554 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 886377007555 Uncharacterized conserved protein [Function unknown]; Region: COG1912 886377007556 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 886377007557 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007558 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 886377007559 ATP binding site [chemical binding]; other site 886377007560 active site 886377007561 substrate binding site [chemical binding]; other site 886377007562 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 886377007563 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 886377007564 Sodium:solute symporter family; Region: SSF; cl00456 886377007565 acetyl-CoA synthetase; Provisional; Region: PRK00174 886377007566 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 886377007567 AMP-binding enzyme; Region: AMP-binding; cl15778 886377007568 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 886377007569 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377007570 active site 886377007571 catalytic site [active] 886377007572 substrate binding site [chemical binding]; other site 886377007573 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 886377007574 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 886377007575 ligand binding site [chemical binding]; other site 886377007576 flexible hinge region; other site 886377007577 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 886377007578 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 886377007579 metal binding triad; other site 886377007580 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 886377007581 hydrophobic ligand binding site; other site 886377007582 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 886377007583 homodimer interface [polypeptide binding]; other site 886377007584 substrate-cofactor binding pocket; other site 886377007585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007586 catalytic residue [active] 886377007587 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 886377007588 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 886377007589 IHF - DNA interface [nucleotide binding]; other site 886377007590 IHF dimer interface [polypeptide binding]; other site 886377007591 DNA polymerase II large subunit; Validated; Region: PRK04023 886377007592 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 886377007593 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 886377007594 putative active site [active] 886377007595 substrate binding site [chemical binding]; other site 886377007596 putative cosubstrate binding site; other site 886377007597 catalytic site [active] 886377007598 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 886377007599 substrate binding site [chemical binding]; other site 886377007600 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 886377007601 ATP binding site [chemical binding]; other site 886377007602 putative Mg++ binding site [ion binding]; other site 886377007603 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 886377007604 nucleotide binding region [chemical binding]; other site 886377007605 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 886377007606 ATP-binding site [chemical binding]; other site 886377007607 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 886377007608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007609 AAA domain; Region: AAA_28; pfam13521 886377007610 Protein of unknown function (DUF493); Region: DUF493; cl01102 886377007611 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 886377007612 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 886377007613 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 886377007614 hinge; other site 886377007615 active site 886377007616 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 886377007617 putative hydrophobic ligand binding site [chemical binding]; other site 886377007618 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 886377007619 putative hydrophobic ligand binding site [chemical binding]; other site 886377007620 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 886377007621 dimerization interface [polypeptide binding]; other site 886377007622 putative DNA binding site [nucleotide binding]; other site 886377007623 putative Zn2+ binding site [ion binding]; other site 886377007624 Cupin domain; Region: Cupin_2; cl09118 886377007625 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 886377007626 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 886377007627 amidohydrolase; Region: amidohydrolases; TIGR01891 886377007628 putative metal binding site [ion binding]; other site 886377007629 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 886377007630 DNA photolyase; Region: DNA_photolyase; pfam00875 886377007631 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 886377007632 classical (c) SDRs; Region: SDR_c; cd05233 886377007633 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 886377007634 NAD(P) binding site [chemical binding]; other site 886377007635 active site 886377007636 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 886377007637 putative hydrophobic ligand binding site [chemical binding]; other site 886377007638 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 886377007639 Sodium:solute symporter family; Region: SSF; cl00456 886377007640 Sodium:solute symporter family; Region: SSF; cl00456 886377007641 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 886377007642 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 886377007643 Maf-like protein; Region: Maf; pfam02545 886377007644 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 886377007645 active site 886377007646 dimer interface [polypeptide binding]; other site 886377007647 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 886377007648 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 886377007649 active site 886377007650 motif I; other site 886377007651 motif II; other site 886377007652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007653 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 886377007654 ResB-like family; Region: ResB; pfam05140 886377007655 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 886377007656 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 886377007657 active site 886377007658 Zn binding site [ion binding]; other site 886377007659 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 886377007660 MatE; Region: MatE; cl10513 886377007661 MatE; Region: MatE; cl10513 886377007662 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 886377007663 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 886377007664 homodimer interface [polypeptide binding]; other site 886377007665 substrate-cofactor binding pocket; other site 886377007666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007667 catalytic residue [active] 886377007668 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 886377007669 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 886377007670 TPR motif; other site 886377007671 binding surface 886377007672 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377007673 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 886377007674 binding surface 886377007675 TPR motif; other site 886377007676 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377007677 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 886377007678 ATP binding site [chemical binding]; other site 886377007679 Mg2+ binding site [ion binding]; other site 886377007680 G-X-G motif; other site 886377007681 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377007682 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 886377007683 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 886377007684 metal binding site [ion binding]; metal-binding site 886377007685 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 886377007686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007687 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; cl12031 886377007688 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 886377007689 CoenzymeA binding site [chemical binding]; other site 886377007690 subunit interaction site [polypeptide binding]; other site 886377007691 PHB binding site; other site 886377007692 chorismate binding enzyme; Region: Chorismate_bind; cl10555 886377007693 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 886377007694 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 886377007695 dimer interface [polypeptide binding]; other site 886377007696 tetramer interface [polypeptide binding]; other site 886377007697 PYR/PP interface [polypeptide binding]; other site 886377007698 TPP binding site [chemical binding]; other site 886377007699 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 886377007700 TPP-binding site; other site 886377007701 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 886377007702 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 886377007703 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 886377007704 Sporulation related domain; Region: SPOR; cl10051 886377007705 UbiA prenyltransferase family; Region: UbiA; cl00337 886377007706 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 886377007707 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 886377007708 active site 886377007709 phosphorylation site [posttranslational modification] 886377007710 intermolecular recognition site; other site 886377007711 dimerization interface [polypeptide binding]; other site 886377007712 LytTr DNA-binding domain; Region: LytTR; cl04498 886377007713 Tetratricopeptide repeat; Region: TPR_12; pfam13424 886377007714 Histidine kinase; Region: HisKA_2; cl06527 886377007715 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 886377007716 ATP binding site [chemical binding]; other site 886377007717 Mg2+ binding site [ion binding]; other site 886377007718 G-X-G motif; other site 886377007719 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 886377007720 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 886377007721 active site 886377007722 CAAX protease self-immunity; Region: Abi; cl00558 886377007723 O-succinylbenzoic acid--CoA ligase; Reviewed; Region: PRK07445 886377007724 AMP-binding enzyme; Region: AMP-binding; cl15778 886377007725 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 886377007726 active site 886377007727 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 886377007728 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377007729 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 886377007730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007731 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377007732 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 886377007733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007734 Walker A/P-loop; other site 886377007735 ATP binding site [chemical binding]; other site 886377007736 Q-loop/lid; other site 886377007737 ABC transporter signature motif; other site 886377007738 Walker B; other site 886377007739 D-loop; other site 886377007740 H-loop/switch region; other site 886377007741 ABC transporter; Region: ABC_tran_2; pfam12848 886377007742 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377007743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377007744 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 886377007745 fumarate hydratase; Reviewed; Region: fumC; PRK00485 886377007746 Class II fumarases; Region: Fumarase_classII; cd01362 886377007747 active site 886377007748 tetramer interface [polypeptide binding]; other site 886377007749 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13428 886377007750 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007751 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; cl00284 886377007752 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 886377007753 ArsC family; Region: ArsC; pfam03960 886377007754 catalytic residues [active] 886377007755 peptide chain release factor 2; Validated; Region: prfB; PRK00578 886377007756 RF-1 domain; Region: RF-1; cl02875 886377007757 RF-1 domain; Region: RF-1; cl02875 886377007758 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 886377007759 active site 886377007760 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 886377007761 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 886377007762 tetramer interface [polypeptide binding]; other site 886377007763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007764 catalytic residue [active] 886377007765 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 886377007766 GIY-YIG motif/motif A; other site 886377007767 putative active site [active] 886377007768 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 886377007769 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 886377007770 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; cl12031 886377007771 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 886377007772 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 886377007773 dimer interface [polypeptide binding]; other site 886377007774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377007775 catalytic residue [active] 886377007776 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 886377007777 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 886377007778 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377007779 catalytic residue [active] 886377007780 N-carbamolyputrescine amidase; Region: PLN02747 886377007781 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 886377007782 putative active site [active] 886377007783 catalytic triad [active] 886377007784 putative dimer interface [polypeptide binding]; other site 886377007785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007787 Helix-turn-helix domains; Region: HTH; cl00088 886377007788 Helix-turn-helix domains; Region: HTH; cl00088 886377007789 putative transposase OrfB; Reviewed; Region: PHA02517 886377007790 Integrase core domain; Region: rve; cl01316 886377007791 Integrase core domain; Region: rve_3; cl15866 886377007792 Helix-turn-helix domains; Region: HTH; cl00088 886377007793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007794 Walker A/P-loop; other site 886377007795 ATP binding site [chemical binding]; other site 886377007796 Q-loop/lid; other site 886377007797 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 886377007798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007799 Walker A/P-loop; other site 886377007800 ATP binding site [chemical binding]; other site 886377007801 Q-loop/lid; other site 886377007802 ABC transporter signature motif; other site 886377007803 Walker B; other site 886377007804 D-loop; other site 886377007805 H-loop/switch region; other site 886377007806 Phosphopantetheine attachment site; Region: PP-binding; cl09936 886377007807 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 886377007808 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377007809 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 886377007810 active site 886377007811 DNA binding site [nucleotide binding] 886377007812 Int/Topo IB signature motif; other site 886377007814 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377007815 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377007816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377007817 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377007818 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 886377007819 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 886377007820 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 886377007821 MatE; Region: MatE; cl10513 886377007822 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 886377007823 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 886377007824 binding surface 886377007825 TPR motif; other site 886377007826 TPR repeat; Region: TPR_11; pfam13414 886377007827 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377007828 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007829 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377007830 ligand binding site [chemical binding]; other site 886377007831 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377007832 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377007833 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 886377007834 binding surface 886377007835 Tetratricopeptide repeat; Region: TPR_16; pfam13432 886377007836 TPR motif; other site 886377007837 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 886377007838 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007839 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377007840 ligand binding site [chemical binding]; other site 886377007841 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377007842 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377007843 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 886377007844 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 886377007845 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 886377007846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007847 Walker A/P-loop; other site 886377007848 ATP binding site [chemical binding]; other site 886377007849 Q-loop/lid; other site 886377007850 ABC transporter signature motif; other site 886377007851 Walker B; other site 886377007852 D-loop; other site 886377007853 H-loop/switch region; other site 886377007854 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 886377007855 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377007856 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 886377007857 DNA binding residues [nucleotide binding] 886377007858 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 886377007859 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 886377007860 minor groove reading motif; other site 886377007861 helix-hairpin-helix signature motif; other site 886377007862 substrate binding pocket [chemical binding]; other site 886377007863 active site 886377007864 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 886377007865 catalytic triad [active] 886377007866 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 886377007867 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 886377007868 Predicted esterase [General function prediction only]; Region: COG0400 886377007869 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; cl12031 886377007870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 886377007871 dihydroorotase; Validated; Region: pyrC; PRK09357 886377007872 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 886377007873 active site 886377007874 Aerotolerance regulator N-terminal; Region: BatA; cl06567 886377007875 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 886377007876 active site 886377007877 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 886377007878 Members of the SGNH-hydrolase superfamily, 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_like_4; cd04501 886377007879 active site 886377007880 catalytic triad [active] 886377007881 oxyanion hole [active] 886377007882 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 886377007883 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 886377007884 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007886 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377007887 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377007888 DinB superfamily; Region: DinB_2; pfam12867 886377007889 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 886377007890 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377007891 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 886377007892 putative catalytic residue [active] 886377007893 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 886377007894 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 886377007895 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 886377007896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007897 Walker A/P-loop; other site 886377007898 ATP binding site [chemical binding]; other site 886377007899 Q-loop/lid; other site 886377007900 ABC transporter signature motif; other site 886377007901 Walker B; other site 886377007902 D-loop; other site 886377007903 H-loop/switch region; other site 886377007904 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 886377007905 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 886377007906 Preprotein translocase subunit; Region: YajC; cl00806 886377007907 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377007908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007909 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 886377007910 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 886377007911 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 886377007912 Walker A/P-loop; other site 886377007913 ATP binding site [chemical binding]; other site 886377007914 Q-loop/lid; other site 886377007915 ABC transporter signature motif; other site 886377007916 Walker B; other site 886377007917 D-loop; other site 886377007918 H-loop/switch region; other site 886377007919 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377007920 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 886377007921 dimer interface [polypeptide binding]; other site 886377007922 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377007923 catalytic triad [active] 886377007924 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 protein; Region: CSP_CDS; cd04458 886377007925 DNA-binding site [nucleotide binding]; DNA binding site 886377007926 RNA-binding motif; other site 886377007927 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 886377007928 active site 886377007929 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 886377007930 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 886377007931 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 886377007932 homodecamer interface [polypeptide binding]; other site 886377007933 GTP cyclohydrolase I; Provisional; Region: PLN03044 886377007934 active site 886377007935 putative catalytic site residues [active] 886377007936 zinc binding site [ion binding]; other site 886377007937 GTP-CH-I/GFRP interaction surface; other site 886377007938 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377007939 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; cl00284 886377007940 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 886377007941 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 886377007942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377007943 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 886377007944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377007945 catalytic residue [active] 886377007946 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 886377007947 NAD(P) binding site [chemical binding]; other site 886377007948 4Fe-4S binding domain; Region: Fer4; cl02805 886377007949 GTP-binding protein YchF; Reviewed; Region: PRK09601 886377007950 YchF GTPase; Region: YchF; cd01900 886377007951 G1 box; other site 886377007952 GTP/Mg2+ binding site [chemical binding]; other site 886377007953 Switch I region; other site 886377007954 G2 box; other site 886377007955 Switch II region; other site 886377007956 G3 box; other site 886377007957 G4 box; other site 886377007958 G5 box; other site 886377007959 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 886377007960 EamA-like transporter family; Region: EamA; cl01037 886377007961 EamA-like transporter family; Region: EamA; cl01037 886377007962 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 886377007963 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377007964 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 886377007965 ATP binding site [chemical binding]; other site 886377007966 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 886377007967 active site 886377007968 putative metal-binding site [ion binding]; other site 886377007969 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 886377007970 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 886377007971 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 in DNA...; Region: TOP4c; cl00148 886377007972 CAP-like domain; other site 886377007973 active site 886377007974 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 886377007975 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 886377007976 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 886377007977 non-specific DNA binding site [nucleotide binding]; other site 886377007978 salt bridge; other site 886377007979 sequence-specific DNA binding site [nucleotide binding]; other site 886377007980 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 886377007981 putative active site [active] 886377007982 Zn binding site [ion binding]; other site 886377007983 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 886377007984 Helix-turn-helix domains; Region: HTH; cl00088 886377007985 DinB superfamily; Region: DinB_2; pfam12867 886377007986 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 886377007987 active site 886377007988 dimer interface [polypeptide binding]; other site 886377007989 metal binding site [ion binding]; metal-binding site 886377007990 Proline dehydrogenase; Region: Pro_dh; cl03282 886377007991 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377007992 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377007993 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 886377007994 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 886377007995 putative active site [active] 886377007996 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 886377007997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377007998 Walker A/P-loop; other site 886377007999 ATP binding site [chemical binding]; other site 886377008000 Q-loop/lid; other site 886377008001 ABC transporter signature motif; other site 886377008002 Walker B; other site 886377008003 D-loop; other site 886377008004 H-loop/switch region; other site 886377008005 Helix-turn-helix domains; Region: HTH; cl00088 886377008006 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 886377008007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008008 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 886377008009 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 886377008010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008011 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 886377008012 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 886377008013 Walker A motif; other site 886377008014 ATP binding site [chemical binding]; other site 886377008015 Response regulator receiver domain; Region: Response_reg; pfam00072 886377008016 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 886377008017 active site 886377008018 phosphorylation site [posttranslational modification] 886377008019 intermolecular recognition site; other site 886377008020 dimerization interface [polypeptide binding]; other site 886377008021 PglZ domain; Region: PglZ; pfam08665 886377008022 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 886377008023 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 886377008024 Zn2+ binding site [ion binding]; other site 886377008025 Mg2+ binding site [ion binding]; other site 886377008026 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 886377008027 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 886377008028 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 886377008029 trimer interface [polypeptide binding]; other site 886377008030 active site 886377008031 UDP-GlcNAc binding site [chemical binding]; other site 886377008032 lipid binding site [chemical binding]; lipid-binding site 886377008033 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 886377008034 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 886377008035 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 886377008036 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 886377008037 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 886377008038 active site 886377008039 elongation factor P; Validated; Region: PRK00529 886377008040 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 886377008041 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 886377008042 RNA binding site [nucleotide binding]; other site 886377008043 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 886377008044 RNA binding site [nucleotide binding]; other site 886377008045 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 886377008046 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 886377008047 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 886377008048 trimer interface [polypeptide binding]; other site 886377008049 active site 886377008050 UDP-GlcNAc binding site [chemical binding]; other site 886377008051 lipid binding site [chemical binding]; lipid-binding site 886377008052 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 886377008053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008054 CoA-ligase; Region: Ligase_CoA; cl02894 886377008055 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 886377008056 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 886377008057 NAD(P) binding site [chemical binding]; other site 886377008058 homotetramer interface [polypeptide binding]; other site 886377008059 homodimer interface [polypeptide binding]; other site 886377008060 active site 886377008061 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_1; cd03400 886377008062 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 886377008063 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 886377008064 ATP phosphoribosyltransferase; Region: HisG; cl15266 886377008065 HisG, C-terminal domain; Region: HisG_C; cl06867 886377008066 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 886377008067 histidinol dehydrogenase; Region: hisD; TIGR00069 886377008068 NAD binding site [chemical binding]; other site 886377008069 dimerization interface [polypeptide binding]; other site 886377008070 product binding site; other site 886377008071 substrate binding site [chemical binding]; other site 886377008072 zinc binding site [ion binding]; other site 886377008073 catalytic residues [active] 886377008074 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 886377008075 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 886377008076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008077 homodimer interface [polypeptide binding]; other site 886377008078 catalytic residue [active] 886377008079 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 886377008080 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 886377008081 active site 886377008082 motif I; other site 886377008083 motif II; other site 886377008084 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 886377008085 putative active site pocket [active] 886377008086 4-fold oligomerization interface [polypeptide binding]; other site 886377008087 metal binding residues [ion binding]; metal-binding site 886377008088 3-fold/trimer interface [polypeptide binding]; other site 886377008089 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 886377008090 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 886377008091 putative active site [active] 886377008092 oxyanion strand; other site 886377008093 catalytic triad [active] 886377008094 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 886377008095 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 886377008096 catalytic residues [active] 886377008097 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 886377008098 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 886377008099 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 886377008100 substrate binding site [chemical binding]; other site 886377008101 glutamase interaction surface [polypeptide binding]; other site 886377008102 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 886377008103 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 886377008104 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 886377008105 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 886377008106 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 886377008107 metal ion-dependent adhesion site (MIDAS); other site 886377008108 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 886377008109 cysteine synthase B; Region: cysM; TIGR01138 886377008110 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 886377008111 dimer interface [polypeptide binding]; other site 886377008112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008113 catalytic residue [active] 886377008114 serine O-acetyltransferase; Region: cysE; TIGR01172 886377008115 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 886377008116 trimer interface [polypeptide binding]; other site 886377008117 active site 886377008118 substrate binding site [chemical binding]; other site 886377008119 CoA binding site [chemical binding]; other site 886377008120 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 886377008121 Protein of unknown function DUF72; Region: DUF72; cl00777 886377008122 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 886377008123 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 886377008124 active site 886377008125 dimer interface [polypeptide binding]; other site 886377008126 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 886377008127 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 886377008128 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 886377008129 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008130 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 886377008131 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 886377008132 DNA binding residues [nucleotide binding] 886377008133 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 886377008134 ATP binding site [chemical binding]; other site 886377008135 putative Mg++ binding site [ion binding]; other site 886377008136 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 886377008137 nucleotide binding region [chemical binding]; other site 886377008138 ATP-binding site [chemical binding]; other site 886377008139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 886377008140 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 886377008141 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 886377008142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008143 Walker A/P-loop; other site 886377008144 ATP binding site [chemical binding]; other site 886377008145 Q-loop/lid; other site 886377008146 ABC transporter signature motif; other site 886377008147 Walker B; other site 886377008148 D-loop; other site 886377008149 H-loop/switch region; other site 886377008150 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 886377008151 ligand binding site [chemical binding]; other site 886377008152 active site 886377008153 UGI interface [polypeptide binding]; other site 886377008154 catalytic site [active] 886377008155 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 886377008156 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 886377008157 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 886377008158 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 886377008159 putative rRNA binding site [nucleotide binding]; other site 886377008160 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 886377008161 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 886377008162 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 886377008163 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 886377008164 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 886377008165 tetramer interface [polypeptide binding]; other site 886377008166 TPP-binding site [chemical binding]; other site 886377008167 heterodimer interface [polypeptide binding]; other site 886377008168 phosphorylation loop region [posttranslational modification] 886377008169 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 886377008170 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 886377008171 alpha subunit interface [polypeptide binding]; other site 886377008172 TPP binding site [chemical binding]; other site 886377008173 heterodimer interface [polypeptide binding]; other site 886377008174 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377008175 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 886377008176 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008177 ligand binding site [chemical binding]; other site 886377008178 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 886377008179 EamA-like transporter family; Region: EamA; cl01037 886377008180 EamA-like transporter family; Region: EamA; cl01037 886377008181 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 886377008182 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 886377008184 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 886377008185 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 886377008186 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 886377008187 non-specific DNA binding site [nucleotide binding]; other site 886377008188 salt bridge; other site 886377008189 sequence-specific DNA binding site [nucleotide binding]; other site 886377008190 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 886377008191 Catalytic site [active] 886377008192 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 886377008193 ATP-grasp domain; Region: ATP-grasp_4; cl03087 886377008194 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 886377008195 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 886377008196 Protein of unknown function, DUF479; Region: DUF479; cl01203 886377008197 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 886377008198 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 886377008199 active site 886377008200 substrate binding site [chemical binding]; other site 886377008201 metal binding site [ion binding]; metal-binding site 886377008202 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 886377008203 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 886377008204 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 886377008205 putative acyl-acceptor binding pocket; other site 886377008206 Rhomboid family; Region: Rhomboid; cl11446 886377008207 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 886377008208 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 886377008209 catalytic residues [active] 886377008210 FAD binding domain; Region: FAD_binding_4; pfam01565 886377008211 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 886377008212 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 886377008213 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 886377008214 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377008215 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 886377008216 putative active site [active] 886377008217 putative metal binding site [ion binding]; other site 886377008218 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 886377008219 Tetramer interface [polypeptide binding]; other site 886377008220 active site 886377008221 FMN-binding site [chemical binding]; other site 886377008222 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 886377008223 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 886377008224 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 886377008225 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 886377008226 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 886377008227 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008228 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377008229 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377008230 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 886377008231 Protein of unknown function, DUF393; Region: DUF393; cl01136 886377008232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377008233 Coenzyme A binding pocket [chemical binding]; other site 886377008234 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 886377008235 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377008236 Suppression of tumorigenicity 7; Region: ST7; cd11557 886377008237 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008239 Transcriptional regulators [Transcription]; Region: GntR; COG1802 886377008240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 886377008241 DNA-binding site [nucleotide binding]; DNA binding site 886377008242 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 886377008243 NAD(P) binding site [chemical binding]; other site 886377008244 catalytic residues [active] 886377008245 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 886377008246 Ligand Binding Site [chemical binding]; other site 886377008247 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 886377008248 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 886377008249 non-specific DNA binding site [nucleotide binding]; other site 886377008250 salt bridge; other site 886377008251 sequence-specific DNA binding site [nucleotide binding]; other site 886377008252 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 886377008253 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 886377008254 putative active site [active] 886377008255 putative catalytic site [active] 886377008256 putative Mg binding site IVb [ion binding]; other site 886377008257 putative phosphate binding site [ion binding]; other site 886377008258 putative DNA binding site [nucleotide binding]; other site 886377008259 putative Mg binding site IVa [ion binding]; other site 886377008260 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377008261 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 886377008262 VPS10 domain; Region: VPS10; smart00602 886377008263 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 886377008264 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 886377008265 binding surface 886377008266 TPR motif; other site 886377008267 TPR repeat; Region: TPR_11; pfam13414 886377008268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 886377008269 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377008270 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377008271 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_5; cd07238 886377008272 dimer interface [polypeptide binding]; other site 886377008273 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 886377008274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 886377008275 Protein of unknown function (DUF419); Region: DUF419; cl15265 886377008276 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 886377008277 DoxX; Region: DoxX; cl00976 886377008278 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 886377008279 hydrophobic ligand binding site; other site 886377008280 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 886377008281 dimerization interface [polypeptide binding]; other site 886377008282 putative DNA binding site [nucleotide binding]; other site 886377008283 putative Zn2+ binding site [ion binding]; other site 886377008284 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 886377008285 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 886377008286 apical/protease domain interface [polypeptide binding]; other site 886377008287 substrate binding [chemical binding]; other site 886377008288 dimer interface [polypeptide binding]; other site 886377008289 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 886377008290 dimer interface [polypeptide binding]; other site 886377008291 active site 886377008292 metal binding site [ion binding]; metal-binding site 886377008293 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 886377008294 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 886377008295 MPN+ (JAMM) motif; other site 886377008296 Zinc-binding site [ion binding]; other site 886377008297 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 886377008298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 886377008299 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 886377008300 ATP binding site [chemical binding]; other site 886377008301 Mg2+ binding site [ion binding]; other site 886377008302 G-X-G motif; other site 886377008303 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; cl16911 886377008304 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 886377008305 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; cl16911 886377008306 Domain of unknown function DUF302; Region: DUF302; cl01364 886377008307 Cupin domain; Region: Cupin_2; cl09118 886377008308 Helix-turn-helix domain; Region: HTH_18; pfam12833 886377008309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 886377008310 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 886377008311 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 886377008312 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 886377008314 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 886377008315 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 886377008316 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 886377008317 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 886377008318 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 886377008319 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377008320 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 886377008321 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 886377008322 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 886377008323 tetramer interface [polypeptide binding]; other site 886377008324 TPP-binding site [chemical binding]; other site 886377008325 heterodimer interface [polypeptide binding]; other site 886377008326 phosphorylation loop region [posttranslational modification] 886377008327 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 886377008328 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 886377008329 PYR/PP interface [polypeptide binding]; other site 886377008330 dimer interface [polypeptide binding]; other site 886377008331 TPP binding site [chemical binding]; other site 886377008332 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 886377008333 DoxX; Region: DoxX; cl00976 886377008334 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 886377008335 DNA polymerase III, delta subunit; Region: holA; TIGR01128 886377008336 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 886377008337 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 886377008338 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 886377008339 Probable Catalytic site; other site 886377008340 metal-binding site 886377008341 hypothetical protein; Validated; Region: PRK09039 886377008342 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 886377008343 ligand binding site [chemical binding]; other site 886377008344 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 886377008345 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 886377008346 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 886377008347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008348 Family description; Region: UvrD_C_2; cl15862 886377008349 DsrE/DsrF-like family; Region: DrsE; cl00672 886377008350 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 886377008351 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 886377008352 metal binding site [ion binding]; metal-binding site 886377008353 putative dimer interface [polypeptide binding]; other site 886377008354 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377008355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377008356 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377008357 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 886377008358 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 886377008359 active site 886377008360 FMN binding site [chemical binding]; other site 886377008361 substrate binding site [chemical binding]; other site 886377008362 3Fe-4S cluster binding site [ion binding]; other site 886377008363 hypothetical protein; Provisional; Region: PRK11281 886377008364 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 886377008365 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 886377008366 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 886377008367 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 886377008368 Zn binding site [ion binding]; other site 886377008369 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 886377008370 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 886377008371 generic binding surface II; other site 886377008372 ssDNA binding site; other site 886377008373 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 886377008374 ATP binding site [chemical binding]; other site 886377008375 putative Mg++ binding site [ion binding]; other site 886377008376 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 886377008377 nucleotide binding region [chemical binding]; other site 886377008378 ATP-binding site [chemical binding]; other site 886377008379 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 886377008380 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 886377008381 substrate binding site [chemical binding]; other site 886377008382 ligand binding site [chemical binding]; other site 886377008383 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 886377008384 substrate binding site [chemical binding]; other site 886377008385 (R)-citramalate synthase; Provisional; Region: PRK09389 886377008386 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 886377008387 active site 886377008388 catalytic residues [active] 886377008389 metal binding site [ion binding]; metal-binding site 886377008390 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 886377008391 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 886377008392 tartrate dehydrogenase; Provisional; Region: PRK08194 886377008393 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 886377008394 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 886377008395 tetrameric interface [polypeptide binding]; other site 886377008396 activator binding site; other site 886377008397 NADP binding site [chemical binding]; other site 886377008398 substrate binding site [chemical binding]; other site 886377008399 catalytic residues [active] 886377008400 threonine dehydratase; Validated; Region: PRK08639 886377008401 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 886377008402 tetramer interface [polypeptide binding]; other site 886377008403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008404 catalytic residue [active] 886377008405 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 886377008406 putative Ile/Val binding site [chemical binding]; other site 886377008407 ketol-acid reductoisomerase; Validated; Region: PRK05225 886377008408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008409 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 886377008410 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 886377008411 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 886377008412 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 886377008413 putative valine binding site [chemical binding]; other site 886377008414 dimer interface [polypeptide binding]; other site 886377008415 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 886377008416 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 886377008417 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 886377008418 PYR/PP interface [polypeptide binding]; other site 886377008419 dimer interface [polypeptide binding]; other site 886377008420 TPP binding site [chemical binding]; other site 886377008421 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 886377008422 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 886377008423 TPP-binding site [chemical binding]; other site 886377008424 dimer interface [polypeptide binding]; other site 886377008425 Dehydratase family; Region: ILVD_EDD; cl00340 886377008426 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 886377008427 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 886377008428 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 886377008429 LamB/YcsF family; Region: LamB_YcsF; cl00664 886377008430 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 886377008431 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 886377008432 Mg chelatase-related protein; Region: TIGR00368 886377008433 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 886377008434 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008435 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 886377008436 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 886377008437 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 886377008438 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 886377008439 active site 886377008440 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 886377008441 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 886377008442 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 886377008443 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377008444 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 886377008445 Ligand Binding Site [chemical binding]; other site 886377008446 B3/4 domain; Region: B3_4; cl11458 886377008447 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008448 Ca2+ binding site [ion binding]; other site 886377008449 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008450 Ca2+ binding site [ion binding]; other site 886377008451 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008452 Ca2+ binding site [ion binding]; other site 886377008453 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377008454 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377008455 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377008456 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377008457 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 886377008458 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 886377008459 chorismate binding enzyme; Region: Chorismate_bind; cl10555 886377008460 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 886377008461 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 886377008462 Acyltransferase family; Region: Acyl_transf_3; pfam01757 886377008463 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 886377008464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 886377008466 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 886377008467 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008468 Ca2+ binding site [ion binding]; other site 886377008469 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377008470 Ca2+ binding site [ion binding]; other site 886377008471 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377008472 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 886377008473 Helix-turn-helix domains; Region: HTH; cl00088 886377008474 Helix-turn-helix domains; Region: HTH; cl00088 886377008475 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 886377008476 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 886377008477 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377008478 catalytic residue [active] 886377008479 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 886377008480 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 886377008481 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 886377008482 dimer interface [polypeptide binding]; other site 886377008483 decamer (pentamer of dimers) interface [polypeptide binding]; other site 886377008484 catalytic triad [active] 886377008485 peroxidatic and resolving cysteines [active] 886377008486 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 886377008487 catalytic residues [active] 886377008488 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 886377008489 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 886377008490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008491 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 886377008492 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 886377008493 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 886377008494 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 886377008495 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 886377008496 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 886377008497 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 886377008498 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 886377008499 dimerization interface [polypeptide binding]; other site 886377008500 active site 886377008501 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 886377008502 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 886377008503 N-terminal plug; other site 886377008504 ligand-binding site [chemical binding]; other site 886377008505 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 886377008506 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 886377008507 putative ligand binding site [chemical binding]; other site 886377008508 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 886377008509 ABC-ATPase subunit interface; other site 886377008510 dimer interface [polypeptide binding]; other site 886377008511 putative PBP binding regions; other site 886377008512 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 886377008513 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 886377008514 RmuC family; Region: RmuC; pfam02646 886377008515 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 886377008516 putative active site [active] 886377008517 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 886377008518 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 886377008519 putative active site [active] 886377008520 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 886377008521 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 886377008522 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 886377008523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008524 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 886377008525 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 886377008526 Protein of unknown function, DUF399; Region: DUF399; cl01139 886377008527 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 886377008528 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377008529 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377008530 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; cl12031 886377008531 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 886377008532 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 886377008533 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; cl16911 886377008534 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 886377008535 non-specific DNA binding site [nucleotide binding]; other site 886377008536 salt bridge; other site 886377008537 sequence-specific DNA binding site [nucleotide binding]; other site 886377008538 Tic20-like protein; Region: Tic20; pfam09685 886377008539 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377008540 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 886377008541 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 886377008542 active site 886377008543 putative substrate binding pocket [chemical binding]; other site 886377008544 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 886377008545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377008546 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 886377008547 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 886377008548 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 886377008549 MoaE interaction surface [polypeptide binding]; other site 886377008550 MoeB interaction surface [polypeptide binding]; other site 886377008551 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 886377008552 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 886377008553 metal ion-dependent adhesion site (MIDAS); other site 886377008554 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377008555 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377008556 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 886377008557 putative active site [active] 886377008558 Zn binding site [ion binding]; other site 886377008559 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 886377008560 amidase catalytic site [active] 886377008561 Zn binding residues [ion binding]; other site 886377008562 substrate binding site [chemical binding]; other site 886377008563 Transposase; Region: DEDD_Tnp_IS110; pfam01548 886377008564 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 886377008565 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 886377008566 3D domain; Region: 3D; cl01439 886377008567 Family description; Region: VCBS; pfam13517 886377008568 Family description; Region: VCBS; pfam13517 886377008569 Family description; Region: VCBS; pfam13517 886377008570 Pirin-related protein [General function prediction only]; Region: COG1741 886377008571 Cupin domain; Region: Cupin_2; cl09118 886377008572 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 886377008573 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 886377008574 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 886377008575 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 886377008576 inhibitor-cofactor binding pocket; inhibition site 886377008577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 886377008578 catalytic residue [active] 886377008579 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 886377008580 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377008581 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 886377008582 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 886377008583 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 886377008584 Int/Topo IB signature motif; other site 886377008587 HipA-like N-terminal domain; Region: HipA_N; pfam07805 886377008588 HipA-like C-terminal domain; Region: HipA_C; pfam07804 886377008589 HipA N-terminal domain; Region: Couple_hipA; cl11853 886377008590 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 886377008591 non-specific DNA binding site [nucleotide binding]; other site 886377008592 salt bridge; other site 886377008593 sequence-specific DNA binding site [nucleotide binding]; other site 886377008594 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 886377008595 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 886377008596 transmembrane helices; other site 886377008597 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 886377008598 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 886377008599 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 886377008600 putative substrate translocation pore; other site 886377008601 glucose/galactose transporter; Region: gluP; TIGR01272 886377008602 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 886377008603 starch binding outer membrane protein SusD; Region: SusD; cd08977 886377008604 Secretin and TonB N terminus short domain; Region: STN; cl06624 886377008605 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008606 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377008607 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377008608 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; cl00284 886377008609 FecR protein; Region: FecR; pfam04773 886377008610 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377008611 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377008612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008613 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 886377008614 DNA binding residues [nucleotide binding] 886377008616 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008617 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 886377008618 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 886377008619 N-terminal plug; other site 886377008620 ligand-binding site [chemical binding]; other site 886377008621 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 886377008622 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377008623 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 886377008625 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 886377008627 Sodium:solute symporter family; Region: SSF; cl00456 886377008628 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 886377008629 putative catalytic site [active] 886377008630 putative metal binding site [ion binding]; other site 886377008631 putative phosphate binding site [ion binding]; other site 886377008632 HEAT repeats; Region: HEAT_2; pfam13646 886377008633 HEAT repeats; Region: HEAT_2; pfam13646 886377008634 HEAT repeats; Region: HEAT_2; pfam13646 886377008635 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377008636 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 886377008637 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008639 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 886377008640 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 886377008641 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 886377008642 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 886377008643 putative substrate translocation pore; other site 886377008644 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 886377008645 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 886377008646 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 886377008647 dimerization interface [polypeptide binding]; other site 886377008648 putative active cleft [active] 886377008649 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377008650 SusD family; Region: SusD; pfam07980 886377008651 Secretin and TonB N terminus short domain; Region: STN; cl06624 886377008652 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377008653 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008654 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; cl00284 886377008655 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; cl00284 886377008656 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 886377008657 FecR protein; Region: FecR; pfam04773 886377008658 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377008659 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008660 Helix-turn-helix domains; Region: HTH; cl00088 886377008661 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377008662 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 886377008663 active site 886377008664 phosphorylation site [posttranslational modification] 886377008665 intermolecular recognition site; other site 886377008666 dimerization interface [polypeptide binding]; other site 886377008667 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 886377008668 DNA binding residues [nucleotide binding] 886377008669 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 886377008670 Histidine kinase; Region: HisKA_3; pfam07730 886377008671 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 886377008672 ATP binding site [chemical binding]; other site 886377008673 Mg2+ binding site [ion binding]; other site 886377008674 G-X-G motif; other site 886377008675 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377008676 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 886377008677 Protein of unknown function (DUF1565); Region: DUF1565; pfam07602 886377008678 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 886377008679 FlgD Ig-like domain; Region: FlgD_ig; cl15790 886377008680 aconitate hydratase; Validated; Region: PRK07229 886377008681 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 886377008682 substrate binding site [chemical binding]; other site 886377008683 ligand binding site [chemical binding]; other site 886377008684 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 886377008685 substrate binding site [chemical binding]; other site 886377008686 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 886377008687 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 886377008688 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 886377008689 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377008690 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 886377008691 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 886377008692 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 886377008693 HEAT repeats; Region: HEAT_2; pfam13646 886377008694 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 886377008695 protein binding surface [polypeptide binding]; other site 886377008696 HEAT repeats; Region: HEAT_2; pfam13646 886377008697 HEAT repeats; Region: HEAT_2; pfam13646 886377008698 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 886377008699 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 886377008700 Interdomain contacts; other site 886377008701 Cytokine receptor motif; other site 886377008702 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 886377008703 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 886377008704 active site 886377008705 putative substrate binding pocket [chemical binding]; other site 886377008706 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 886377008707 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 886377008708 starch binding outer membrane protein SusD; Region: SusD; cl15876 886377008709 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 886377008710 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008711 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 886377008712 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; cl00284 886377008713 FecR protein; Region: FecR; pfam04773 886377008714 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 886377008715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 886377008716 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 886377008717 DNA binding residues [nucleotide binding] 886377008718 intracellular protease, PfpI family; Region: PfpI; TIGR01382 886377008719 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 886377008720 conserved cys residue [active] 886377008721 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008722 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 886377008723 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; cl00284 886377008724 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 886377008725 Helix-turn-helix domains; Region: HTH; cl00088 886377008726 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 886377008727 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 886377008728 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 886377008729 dimer interface [polypeptide binding]; other site 886377008730 putative functional site; other site 886377008731 putative MPT binding site; other site 886377008732 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 886377008733 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 886377008734 FeS/SAM binding site; other site 886377008735 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 886377008736 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 886377008737 MoaC family. 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 derivative to the precursor...; Region: MoaC; cd00528 886377008738 trimer interface [polypeptide binding]; other site 886377008739 dimer interface [polypeptide binding]; other site 886377008740 putative active site [active] 886377008741 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 886377008742 MPT binding site; other site 886377008743 trimer interface [polypeptide binding]; other site 886377008744 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 886377008745 MoaE homodimer interface [polypeptide binding]; other site 886377008746 MoaD interaction [polypeptide binding]; other site 886377008747 active site residues [active] 886377008748 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 886377008749 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 886377008750 ATP binding site [chemical binding]; other site 886377008751 substrate interface [chemical binding]; other site 886377008752 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 886377008753 active site residue [active] 886377008754 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 886377008755 MoaE interaction surface [polypeptide binding]; other site 886377008756 MoeB interaction surface [polypeptide binding]; other site 886377008757 thiocarboxylated glycine; other site 886377008758 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 886377008759 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 886377008760 Ligand binding site; other site 886377008761 metal-binding site 886377008762 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 886377008763 XdhC Rossmann domain; Region: XdhC_C; pfam13478 886377008764 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 886377008765 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 886377008766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 886377008767 catalytic residue [active] 886377008768 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 886377008769 dimerization interface [polypeptide binding]; other site 886377008770 putative DNA binding site [nucleotide binding]; other site 886377008771 putative Zn2+ binding site [ion binding]; other site 886377008772 Low molecular weight phosphatase family; Region: LMWPc; cl00105 886377008773 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 886377008774 Membrane transport protein; Region: Mem_trans; cl09117 886377008775 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 886377008776 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 886377008777 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 886377008778 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008779 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 886377008780 catalytic residues [active] 886377008781 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 886377008782 dimer interface [polypeptide binding]; other site 886377008783 putative tRNA-binding site [nucleotide binding]; other site 886377008785 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 886377008786 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377008787 Sulfate transporter family; Region: Sulfate_transp; cl15842 886377008788 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 886377008789 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 886377008790 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 886377008791 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; cl15357 886377008792 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 886377008793 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377008794 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 886377008795 active site 886377008796 phosphorylation site [posttranslational modification] 886377008797 intermolecular recognition site; other site 886377008798 dimerization interface [polypeptide binding]; other site 886377008799 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 886377008800 DNA binding residues [nucleotide binding] 886377008801 dimerization interface [polypeptide binding]; other site 886377008802 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 886377008803 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 886377008804 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 886377008805 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 886377008806 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 886377008807 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 886377008808 oligomerization interface [polypeptide binding]; other site 886377008809 active site 886377008810 metal binding site [ion binding]; metal-binding site 886377008811 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 886377008812 active site 886377008814 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 886377008815 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 886377008816 active site 886377008817 catalytic residues [active] 886377008818 metal binding site [ion binding]; metal-binding site 886377008819 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 886377008820 tartrate dehydrogenase; Provisional; Region: PRK08194 886377008821 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 886377008822 catalytic residues [active] 886377008823 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 886377008824 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 886377008825 putative tRNA-binding site [nucleotide binding]; other site 886377008826 B3/4 domain; Region: B3_4; cl11458 886377008827 tRNA synthetase B5 domain; Region: B5; cl08394 886377008828 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 886377008829 dimer interface [polypeptide binding]; other site 886377008830 motif 1; other site 886377008831 motif 3; other site 886377008832 motif 2; other site 886377008833 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 886377008834 Fasciclin domain; Region: Fasciclin; cl02663 886377008835 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 886377008836 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008837 Walker A/P-loop; other site 886377008838 ATP binding site [chemical binding]; other site 886377008839 Q-loop/lid; other site 886377008840 ABC transporter signature motif; other site 886377008841 Walker B; other site 886377008842 D-loop; other site 886377008843 H-loop/switch region; other site 886377008844 ABC transporter; Region: ABC_tran_2; pfam12848 886377008845 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 886377008846 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377008847 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 886377008848 active site 886377008849 intersubunit interactions; other site 886377008850 catalytic residue [active] 886377008851 short chain dehydrogenase; Provisional; Region: PRK06914 886377008852 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 886377008853 NADP binding site [chemical binding]; other site 886377008854 active site 886377008855 steroid binding site; other site 886377008856 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 886377008857 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 886377008858 active site 886377008859 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008860 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 886377008861 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; cd05709 886377008862 active site 886377008863 putative substrate binding region [chemical binding]; other site 886377008864 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 886377008865 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 886377008866 active site 886377008867 phosphorylation site [posttranslational modification] 886377008868 intermolecular recognition site; other site 886377008869 dimerization interface [polypeptide binding]; other site 886377008870 LytTr DNA-binding domain; Region: LytTR; cl04498 886377008871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 886377008872 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 886377008873 ATP binding site [chemical binding]; other site 886377008874 Mg2+ binding site [ion binding]; other site 886377008875 G-X-G motif; other site 886377008876 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 886377008877 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 886377008878 active site 886377008879 phosphorylation site [posttranslational modification] 886377008880 intermolecular recognition site; other site 886377008881 dimerization interface [polypeptide binding]; other site 886377008882 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 886377008883 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 886377008884 dimer interface [polypeptide binding]; other site 886377008885 active site 886377008886 glycine-pyridoxal phosphate binding site [chemical binding]; other site 886377008887 folate binding site [chemical binding]; other site 886377008888 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 886377008889 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 886377008890 Clp amino terminal domain; Region: Clp_N; pfam02861 886377008891 Clp amino terminal domain; Region: Clp_N; pfam02861 886377008892 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 886377008893 Walker A motif; other site 886377008894 ATP binding site [chemical binding]; other site 886377008895 Walker B motif; other site 886377008896 arginine finger; other site 886377008897 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 886377008898 Walker A motif; other site 886377008899 ATP binding site [chemical binding]; other site 886377008900 Walker B motif; other site 886377008901 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 886377008902 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 886377008903 GntP family permease; Region: GntP_permease; pfam02447 886377008904 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 886377008905 homotrimer interaction site [polypeptide binding]; other site 886377008906 putative active site [active] 886377008907 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 886377008908 active site 886377008909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 886377008910 Helix-turn-helix domains; Region: HTH; cl00088 886377008911 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 886377008912 active site 886377008913 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 886377008914 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 886377008915 catalytic core [active] 886377008916 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 886377008917 SmpB-tmRNA interface; other site 886377008918 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; cl16911 886377008919 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 886377008920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008921 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 886377008922 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 886377008923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008924 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 886377008925 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 886377008926 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 886377008927 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 886377008928 catalytic residue [active] 886377008929 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 886377008930 active site 886377008931 catalytic site [active] 886377008932 substrate binding site [chemical binding]; other site 886377008933 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 886377008934 GIY-YIG motif/motif A; other site 886377008935 active site 886377008936 catalytic site [active] 886377008937 putative DNA binding site [nucleotide binding]; other site 886377008938 metal binding site [ion binding]; metal-binding site 886377008939 Ion transport protein; Region: Ion_trans; pfam00520 886377008940 Ion channel; Region: Ion_trans_2; cl11596 886377008941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 886377008942 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 886377008943 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 886377008944 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 886377008945 ATP-binding site [chemical binding]; other site 886377008946 Gluconate-6-phosphate binding site [chemical binding]; other site 886377008947 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 886377008948 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 886377008949 active site 886377008950 phosphorylation site [posttranslational modification] 886377008951 intermolecular recognition site; other site 886377008952 dimerization interface [polypeptide binding]; other site 886377008953 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 886377008954 DNA binding site [nucleotide binding] 886377008955 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 886377008956 dimer interface [polypeptide binding]; other site 886377008957 phosphorylation site [posttranslational modification] 886377008958 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 886377008959 ATP binding site [chemical binding]; other site 886377008960 Mg2+ binding site [ion binding]; other site 886377008961 G-X-G motif; other site 886377008962 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 886377008963 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 886377008964 CoA-binding site [chemical binding]; other site 886377008965 ATP-binding [chemical binding]; other site 886377008966 YbbR-like protein; Region: YbbR; pfam07949 886377008967 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 886377008968 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 886377008969 active site 886377008970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 886377008971 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 886377008972 NAD(P) binding site [chemical binding]; other site 886377008973 active site 886377008974 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 886377008975 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 886377008976 Walker A/P-loop; other site 886377008977 ATP binding site [chemical binding]; other site 886377008978 Q-loop/lid; other site 886377008979 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 886377008980 ABC transporter signature motif; other site 886377008981 Walker B; other site 886377008982 D-loop; other site 886377008983 H-loop/switch region; other site 886377008984 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 886377008985 Flavoprotein; Region: Flavoprotein; cl08021 886377008986 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 886377008987 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 886377008988 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 886377008989 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 886377008990 dihydrodipicolinate synthase; Region: dapA; TIGR00674 886377008991 dimer interface [polypeptide binding]; other site 886377008992 active site 886377008993 catalytic residue [active] 886377008994 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 886377008995 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 886377008996 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 886377008997 active site 886377008998 metal binding site [ion binding]; metal-binding site 886377008999 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 886377009000 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377009001 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 886377009002 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377009003 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 886377009004 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 886377009005 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 886377009006 nucleotide binding pocket [chemical binding]; other site 886377009007 K-X-D-G motif; other site 886377009008 catalytic site [active] 886377009009 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 886377009010 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 886377009011 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 886377009012 Dimer interface [polypeptide binding]; other site 886377009013 BRCT sequence motif; other site 886377009014 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 886377009015 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 886377009016 S-adenosylmethionine binding site [chemical binding]; other site 886377009017 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 886377009018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 886377009019 Coenzyme A binding pocket [chemical binding]; other site 886377009020 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 886377009021 catalytic motif [active] 886377009022 Zn binding site [ion binding]; other site 886377009023 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; cl00161 886377009024 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 886377009025 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 886377009026 Uncharacterized conserved protein [Function unknown]; Region: COG1739 886377009027 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 886377009028 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 886377009029 active site