-- dump date 20140619_104922 -- class Genbank::misc_feature -- table misc_feature_note -- id note 557723000001 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 557723000002 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 557723000003 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 557723000004 DNA gyrase subunit A; Validated; Region: PRK05560 557723000005 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 557723000006 CAP-like domain; other site 557723000007 active site 557723000008 primary dimer interface [polypeptide binding]; other site 557723000009 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000010 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000011 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000012 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000013 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000014 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 557723000015 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 557723000016 L-aspartate oxidase; Provisional; Region: PRK06175 557723000017 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557723000018 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 557723000019 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 557723000020 catalytic loop [active] 557723000021 iron binding site [ion binding]; other site 557723000022 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 557723000023 D-subunit interface [polypeptide binding]; other site 557723000024 Iron-sulfur protein interface; other site 557723000025 proximal quinone binding site [chemical binding]; other site 557723000026 distal quinone binding site [chemical binding]; other site 557723000027 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 557723000028 Iron-sulfur protein interface; other site 557723000029 proximal quinone binding site [chemical binding]; other site 557723000030 C-subunit interface; other site 557723000031 distal quinone binding site; other site 557723000032 putative sulfate transport protein CysZ; Validated; Region: PRK04949 557723000033 cell division protein ZipA; Provisional; Region: PRK01741 557723000034 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 557723000035 FtsZ protein binding site [polypeptide binding]; other site 557723000036 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 557723000037 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 557723000038 nucleotide binding pocket [chemical binding]; other site 557723000039 K-X-D-G motif; other site 557723000040 catalytic site [active] 557723000041 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 557723000042 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 557723000043 Dimer interface [polypeptide binding]; other site 557723000044 BRCT sequence motif; other site 557723000045 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 557723000046 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 557723000047 ATP binding site [chemical binding]; other site 557723000048 putative Mg++ binding site [ion binding]; other site 557723000049 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 557723000050 nucleotide binding region [chemical binding]; other site 557723000051 ATP-binding site [chemical binding]; other site 557723000052 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 557723000053 HRDC domain; Region: HRDC; pfam00570 557723000054 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 557723000055 putative iron binding site [ion binding]; other site 557723000056 LexA repressor; Validated; Region: PRK00215 557723000057 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 557723000058 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 557723000059 Catalytic site [active] 557723000060 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557723000061 Sel1 repeat; Region: Sel1; cl02723 557723000062 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 557723000063 Sel1-like repeats; Region: SEL1; smart00671 557723000064 Sel1-like repeats; Region: SEL1; smart00671 557723000065 Sel1-like repeats; Region: SEL1; smart00671 557723000066 Sel1-like repeats; Region: SEL1; smart00671 557723000067 Sel1-like repeats; Region: SEL1; smart00671 557723000068 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 557723000069 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 557723000070 putative acyl-acceptor binding pocket; other site 557723000071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723000072 active site 557723000073 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 557723000074 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 557723000075 Walker A motif; other site 557723000076 ATP binding site [chemical binding]; other site 557723000077 Walker B motif; other site 557723000078 arginine finger; other site 557723000079 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 557723000080 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 557723000081 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 557723000082 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 557723000083 Walker A/P-loop; other site 557723000084 ATP binding site [chemical binding]; other site 557723000085 Q-loop/lid; other site 557723000086 ABC transporter signature motif; other site 557723000087 Walker B; other site 557723000088 D-loop; other site 557723000089 H-loop/switch region; other site 557723000090 inner membrane transport permease; Provisional; Region: PRK15066 557723000091 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 557723000092 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 557723000093 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 557723000094 exonuclease I; Provisional; Region: sbcB; PRK11779 557723000095 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 557723000096 active site 557723000097 substrate binding site [chemical binding]; other site 557723000098 catalytic site [active] 557723000099 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 557723000100 Uncharacterized conserved protein [Function unknown]; Region: COG1912 557723000101 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 557723000102 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 557723000103 active site 557723000104 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 557723000105 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 557723000106 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 557723000107 putative valine binding site [chemical binding]; other site 557723000108 dimer interface [polypeptide binding]; other site 557723000109 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 557723000110 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 557723000111 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557723000112 PYR/PP interface [polypeptide binding]; other site 557723000113 dimer interface [polypeptide binding]; other site 557723000114 TPP binding site [chemical binding]; other site 557723000115 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557723000116 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 557723000117 TPP-binding site [chemical binding]; other site 557723000118 dimer interface [polypeptide binding]; other site 557723000119 tartrate dehydrogenase; Region: TTC; TIGR02089 557723000120 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 557723000121 multidrug efflux protein; Reviewed; Region: PRK09579 557723000122 Protein export membrane protein; Region: SecD_SecF; cl14618 557723000123 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 557723000124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 557723000125 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 557723000126 HlyD family secretion protein; Region: HlyD_3; pfam13437 557723000127 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 557723000128 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557723000129 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 557723000130 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 557723000131 purine monophosphate binding site [chemical binding]; other site 557723000132 dimer interface [polypeptide binding]; other site 557723000133 putative catalytic residues [active] 557723000134 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 557723000135 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 557723000136 cystathionine beta-lyase; Provisional; Region: PRK08114 557723000137 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 557723000138 homodimer interface [polypeptide binding]; other site 557723000139 substrate-cofactor binding pocket; other site 557723000140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723000141 catalytic residue [active] 557723000142 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 557723000143 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 557723000144 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 557723000145 DNA binding site [nucleotide binding] 557723000146 active site 557723000147 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 557723000148 Protein of unknown function (DUF406); Region: DUF406; cl11449 557723000149 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 557723000150 putative active site [active] 557723000151 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 557723000152 ligand binding site; other site 557723000153 tetramer interface; other site 557723000154 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 557723000155 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 557723000156 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 557723000157 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 557723000158 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557723000159 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 557723000160 active site 557723000161 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557723000162 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 557723000163 inhibitor-cofactor binding pocket; inhibition site 557723000164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723000165 catalytic residue [active] 557723000166 Bacterial sugar transferase; Region: Bac_transf; pfam02397 557723000167 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 557723000168 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 557723000169 NAD(P) binding site [chemical binding]; other site 557723000170 homodimer interface [polypeptide binding]; other site 557723000171 substrate binding site [chemical binding]; other site 557723000172 active site 557723000173 polysaccharide export protein Wza; Provisional; Region: PRK15078 557723000174 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 557723000175 SLBB domain; Region: SLBB; pfam10531 557723000176 SLBB domain; Region: SLBB; pfam10531 557723000177 Low molecular weight phosphatase family; Region: LMWPc; cd00115 557723000178 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 557723000179 active site 557723000180 tyrosine kinase; Provisional; Region: PRK11519 557723000181 Chain length determinant protein; Region: Wzz; pfam02706 557723000182 Chain length determinant protein; Region: Wzz; cl15801 557723000183 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 557723000184 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 557723000185 Transcriptional regulator; Region: Rrf2; cl17282 557723000186 Rrf2 family protein; Region: rrf2_super; TIGR00738 557723000187 cysteine desulfurase; Provisional; Region: PRK14012 557723000188 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 557723000189 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557723000190 catalytic residue [active] 557723000191 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 557723000192 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 557723000193 trimerization site [polypeptide binding]; other site 557723000194 active site 557723000195 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 557723000196 co-chaperone HscB; Provisional; Region: hscB; PRK01773 557723000197 DnaJ domain; Region: DnaJ; pfam00226 557723000198 HSP70 interaction site [polypeptide binding]; other site 557723000199 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 557723000200 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723000201 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723000202 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723000203 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 557723000204 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 557723000205 Hsp70 protein; Region: HSP70; pfam00012 557723000206 nucleotide binding site [chemical binding]; other site 557723000207 putative NEF/HSP70 interaction site [polypeptide binding]; other site 557723000208 SBD interface [polypeptide binding]; other site 557723000209 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 557723000210 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 557723000211 catalytic loop [active] 557723000212 iron binding site [ion binding]; other site 557723000213 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 557723000214 S-ribosylhomocysteinase; Provisional; Region: PRK02260 557723000215 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 557723000216 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 557723000217 G1 box; other site 557723000218 putative GEF interaction site [polypeptide binding]; other site 557723000219 GTP/Mg2+ binding site [chemical binding]; other site 557723000220 Switch I region; other site 557723000221 G2 box; other site 557723000222 G3 box; other site 557723000223 Switch II region; other site 557723000224 G4 box; other site 557723000225 G5 box; other site 557723000226 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 557723000227 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 557723000228 glutaredoxin 1; Provisional; Region: grxA; PRK11200 557723000229 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 557723000230 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 557723000231 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 557723000232 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 557723000233 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 557723000234 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 557723000235 active site 557723000236 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 557723000237 colicin uptake protein TolR; Provisional; Region: PRK11024 557723000238 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557723000239 TolA C-terminal; Region: TolA; pfam06519 557723000240 translocation protein TolB; Provisional; Region: tolB; PRK01742 557723000241 TolB amino-terminal domain; Region: TolB_N; pfam04052 557723000242 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557723000243 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 557723000244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557723000245 ligand binding site [chemical binding]; other site 557723000246 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 557723000247 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 557723000248 putative metal binding site [ion binding]; other site 557723000249 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 557723000250 HSP70 interaction site [polypeptide binding]; other site 557723000251 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 557723000252 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 557723000253 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 557723000254 FMN binding site [chemical binding]; other site 557723000255 active site 557723000256 catalytic residues [active] 557723000257 substrate binding site [chemical binding]; other site 557723000258 hypothetical protein; Provisional; Region: PRK05415 557723000259 Domain of unknown function (DUF697); Region: DUF697; cl12064 557723000260 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 557723000261 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 557723000262 dimerization interface 3.5A [polypeptide binding]; other site 557723000263 active site 557723000264 ribonuclease G; Provisional; Region: PRK11712 557723000265 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 557723000266 homodimer interface [polypeptide binding]; other site 557723000267 oligonucleotide binding site [chemical binding]; other site 557723000268 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 557723000269 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557723000270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 557723000271 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 557723000272 OstA-like protein; Region: OstA; cl00844 557723000273 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 557723000274 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 557723000275 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 557723000276 Walker A/P-loop; other site 557723000277 ATP binding site [chemical binding]; other site 557723000278 Q-loop/lid; other site 557723000279 ABC transporter signature motif; other site 557723000280 Walker B; other site 557723000281 D-loop; other site 557723000282 H-loop/switch region; other site 557723000283 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 557723000284 active site 557723000285 phosphorylation site [posttranslational modification] 557723000286 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 557723000287 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557723000288 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 557723000289 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 557723000290 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557723000291 active site 557723000292 HIGH motif; other site 557723000293 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 557723000294 KMSKS motif; other site 557723000295 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 557723000296 tRNA binding surface [nucleotide binding]; other site 557723000297 anticodon binding site; other site 557723000298 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557723000299 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557723000300 peptide binding site [polypeptide binding]; other site 557723000301 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 557723000302 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 557723000303 homodimer interface [polypeptide binding]; other site 557723000304 maltodextrin phosphorylase; Provisional; Region: PRK14985 557723000305 active site pocket [active] 557723000306 disulfide bond formation protein B; Provisional; Region: PRK01749 557723000307 fatty acid metabolism regulator; Provisional; Region: PRK04984 557723000308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557723000309 DNA-binding site [nucleotide binding]; DNA binding site 557723000310 FadR C-terminal domain; Region: FadR_C; pfam07840 557723000311 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 557723000312 ApbE family; Region: ApbE; pfam02424 557723000313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 557723000314 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 557723000315 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557723000316 active site 557723000317 NTP binding site [chemical binding]; other site 557723000318 metal binding triad [ion binding]; metal-binding site 557723000319 antibiotic binding site [chemical binding]; other site 557723000320 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 557723000321 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 557723000322 Ligand Binding Site [chemical binding]; other site 557723000323 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 557723000324 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 557723000325 TPP-binding site; other site 557723000326 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 557723000327 PYR/PP interface [polypeptide binding]; other site 557723000328 dimer interface [polypeptide binding]; other site 557723000329 TPP binding site [chemical binding]; other site 557723000330 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557723000331 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557723000332 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 557723000333 active site 557723000334 dimerization interface [polypeptide binding]; other site 557723000335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723000336 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723000337 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723000338 cell division protein MraZ; Reviewed; Region: PRK00326 557723000339 MraZ protein; Region: MraZ; pfam02381 557723000340 MraZ protein; Region: MraZ; pfam02381 557723000341 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 557723000342 MraW methylase family; Region: Methyltransf_5; pfam01795 557723000343 Cell division protein FtsL; Region: FtsL; pfam04999 557723000344 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557723000345 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557723000346 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557723000347 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 557723000348 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557723000349 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723000350 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557723000351 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 557723000352 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557723000353 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723000354 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557723000355 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 557723000356 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 557723000357 Mg++ binding site [ion binding]; other site 557723000358 putative catalytic motif [active] 557723000359 putative substrate binding site [chemical binding]; other site 557723000360 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 557723000361 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723000362 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557723000363 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 557723000364 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 557723000365 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 557723000366 active site 557723000367 homodimer interface [polypeptide binding]; other site 557723000368 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 557723000369 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557723000370 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723000371 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557723000372 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 557723000373 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 557723000374 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557723000375 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 557723000376 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 557723000377 Cell division protein FtsQ; Region: FtsQ; pfam03799 557723000378 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 557723000379 Cell division protein FtsA; Region: FtsA; pfam14450 557723000380 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557723000381 Cell division protein FtsA; Region: FtsA; pfam14450 557723000382 cell division protein FtsZ; Validated; Region: PRK09330 557723000383 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 557723000384 nucleotide binding site [chemical binding]; other site 557723000385 SulA interaction site; other site 557723000386 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 557723000387 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 557723000388 serine/threonine transporter SstT; Provisional; Region: PRK13628 557723000389 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 557723000390 GTP-binding protein LepA; Provisional; Region: PRK05433 557723000391 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 557723000392 G1 box; other site 557723000393 putative GEF interaction site [polypeptide binding]; other site 557723000394 GTP/Mg2+ binding site [chemical binding]; other site 557723000395 Switch I region; other site 557723000396 G2 box; other site 557723000397 G3 box; other site 557723000398 Switch II region; other site 557723000399 G4 box; other site 557723000400 G5 box; other site 557723000401 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 557723000402 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 557723000403 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 557723000404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723000405 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723000406 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723000407 signal peptidase I; Provisional; Region: PRK10861 557723000408 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 557723000409 Catalytic site [active] 557723000410 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 557723000411 ribonuclease III; Reviewed; Region: rnc; PRK00102 557723000412 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 557723000413 dimerization interface [polypeptide binding]; other site 557723000414 active site 557723000415 metal binding site [ion binding]; metal-binding site 557723000416 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 557723000417 dsRNA binding site [nucleotide binding]; other site 557723000418 GTPase Era; Reviewed; Region: era; PRK00089 557723000419 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 557723000420 G1 box; other site 557723000421 GTP/Mg2+ binding site [chemical binding]; other site 557723000422 Switch I region; other site 557723000423 G2 box; other site 557723000424 Switch II region; other site 557723000425 G3 box; other site 557723000426 G4 box; other site 557723000427 G5 box; other site 557723000428 KH domain; Region: KH_2; pfam07650 557723000429 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 557723000430 Recombination protein O N terminal; Region: RecO_N; pfam11967 557723000431 Recombination protein O C terminal; Region: RecO_C; pfam02565 557723000432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 557723000433 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 557723000434 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 557723000435 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 557723000436 putative nucleotide binding site [chemical binding]; other site 557723000437 uridine monophosphate binding site [chemical binding]; other site 557723000438 homohexameric interface [polypeptide binding]; other site 557723000439 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 557723000440 dimer interface [polypeptide binding]; other site 557723000441 active site 557723000442 ribosome recycling factor; Reviewed; Region: frr; PRK00083 557723000443 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 557723000444 hinge region; other site 557723000445 YcaO-like family; Region: YcaO; pfam02624 557723000446 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557723000447 Sulfate transporter family; Region: Sulfate_transp; pfam00916 557723000448 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 557723000449 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557723000450 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 557723000451 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 557723000452 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 557723000453 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557723000454 TPP binding site [chemical binding]; other site 557723000455 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557723000456 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 557723000457 TPP-binding site [chemical binding]; other site 557723000458 dimer interface [polypeptide binding]; other site 557723000459 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 557723000460 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 557723000461 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 557723000462 active site 557723000463 HIGH motif; other site 557723000464 KMSKS motif; other site 557723000465 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 557723000466 tRNA binding surface [nucleotide binding]; other site 557723000467 anticodon binding site; other site 557723000468 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 557723000469 dimer interface [polypeptide binding]; other site 557723000470 putative tRNA-binding site [nucleotide binding]; other site 557723000471 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 557723000472 active site 557723000473 multimer interface [polypeptide binding]; other site 557723000474 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 557723000475 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 557723000476 dimer interface [polypeptide binding]; other site 557723000477 ADP-ribose binding site [chemical binding]; other site 557723000478 active site 557723000479 nudix motif; other site 557723000480 metal binding site [ion binding]; metal-binding site 557723000481 Predicted membrane protein [Function unknown]; Region: COG1238 557723000482 formate transporter FocA; Region: formate_focA; TIGR04060 557723000483 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 557723000484 Pyruvate formate lyase 1; Region: PFL1; cd01678 557723000485 coenzyme A binding site [chemical binding]; other site 557723000486 active site 557723000487 catalytic residues [active] 557723000488 glycine loop; other site 557723000489 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 557723000490 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 557723000491 FeS/SAM binding site; other site 557723000492 putative transporter; Validated; Region: PRK03818 557723000493 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557723000494 TrkA-C domain; Region: TrkA_C; pfam02080 557723000495 TrkA-C domain; Region: TrkA_C; pfam02080 557723000496 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 557723000497 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 557723000498 AAA domain; Region: AAA_26; pfam13500 557723000499 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557723000500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 557723000501 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 557723000502 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 557723000503 23S rRNA interface [nucleotide binding]; other site 557723000504 L3 interface [polypeptide binding]; other site 557723000505 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 557723000506 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 557723000507 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 557723000508 trimer interface [polypeptide binding]; other site 557723000509 eyelet of channel; other site 557723000510 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 557723000511 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 557723000512 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557723000513 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557723000514 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 557723000515 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 557723000516 ligand binding site [chemical binding]; other site 557723000517 flexible hinge region; other site 557723000518 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 557723000519 putative switch regulator; other site 557723000520 non-specific DNA interactions [nucleotide binding]; other site 557723000521 DNA binding site [nucleotide binding] 557723000522 sequence specific DNA binding site [nucleotide binding]; other site 557723000523 putative cAMP binding site [chemical binding]; other site 557723000524 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 557723000525 S-adenosylmethionine binding site [chemical binding]; other site 557723000526 replicative DNA helicase; Validated; Region: PRK06904 557723000527 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 557723000528 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 557723000529 Walker A motif; other site 557723000530 ATP binding site [chemical binding]; other site 557723000531 Walker B motif; other site 557723000532 DNA binding loops [nucleotide binding] 557723000533 YcgL domain; Region: YcgL; pfam05166 557723000534 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 557723000535 ATP cone domain; Region: ATP-cone; pfam03477 557723000536 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 557723000537 FeS/SAM binding site; other site 557723000538 elongation factor P; Validated; Region: PRK00529 557723000539 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 557723000540 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 557723000541 RNA binding site [nucleotide binding]; other site 557723000542 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 557723000543 RNA binding site [nucleotide binding]; other site 557723000544 Protein of unknown function (DUF904); Region: DUF904; pfam06005 557723000545 thymidine kinase; Provisional; Region: PRK04296 557723000546 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 557723000547 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 557723000548 active site 557723000549 motif I; other site 557723000550 motif II; other site 557723000551 DNA polymerase I; Provisional; Region: PRK05755 557723000552 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 557723000553 active site 557723000554 metal binding site 1 [ion binding]; metal-binding site 557723000555 putative 5' ssDNA interaction site; other site 557723000556 metal binding site 3; metal-binding site 557723000557 metal binding site 2 [ion binding]; metal-binding site 557723000558 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 557723000559 putative DNA binding site [nucleotide binding]; other site 557723000560 putative metal binding site [ion binding]; other site 557723000561 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 557723000562 active site 557723000563 catalytic site [active] 557723000564 substrate binding site [chemical binding]; other site 557723000565 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 557723000566 active site 557723000567 DNA binding site [nucleotide binding] 557723000568 catalytic site [active] 557723000569 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 557723000570 YccA-like proteins; Region: YccA_like; cd10433 557723000571 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 557723000572 Clp amino terminal domain; Region: Clp_N; pfam02861 557723000573 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 557723000574 Walker A motif; other site 557723000575 ATP binding site [chemical binding]; other site 557723000576 Walker B motif; other site 557723000577 arginine finger; other site 557723000578 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 557723000579 Walker A motif; other site 557723000580 ATP binding site [chemical binding]; other site 557723000581 Walker B motif; other site 557723000582 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 557723000583 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 557723000584 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 557723000585 dimerization domain [polypeptide binding]; other site 557723000586 dimer interface [polypeptide binding]; other site 557723000587 catalytic residues [active] 557723000588 putative peptidase; Provisional; Region: PRK11649 557723000589 Peptidase family M23; Region: Peptidase_M23; pfam01551 557723000590 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 557723000591 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557723000592 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557723000593 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 557723000594 ABC-ATPase subunit interface; other site 557723000595 dimer interface [polypeptide binding]; other site 557723000596 putative PBP binding regions; other site 557723000597 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 557723000598 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 557723000599 putative active site [active] 557723000600 putative dimer interface [polypeptide binding]; other site 557723000601 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 557723000602 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 557723000603 active pocket/dimerization site; other site 557723000604 active site 557723000605 phosphorylation site [posttranslational modification] 557723000606 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 557723000607 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 557723000608 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 557723000609 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 557723000610 active site 557723000611 phosphorylation site [posttranslational modification] 557723000612 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 557723000613 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 557723000614 dimer interface [polypeptide binding]; other site 557723000615 active site 557723000616 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 557723000617 putative active site [active] 557723000618 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557723000619 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557723000620 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557723000621 recombination associated protein; Reviewed; Region: rdgC; PRK00321 557723000622 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557723000623 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723000624 dimer interface [polypeptide binding]; other site 557723000625 conserved gate region; other site 557723000626 putative PBP binding loops; other site 557723000627 ABC-ATPase subunit interface; other site 557723000628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723000629 dimer interface [polypeptide binding]; other site 557723000630 conserved gate region; other site 557723000631 putative PBP binding loops; other site 557723000632 ABC-ATPase subunit interface; other site 557723000633 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 557723000634 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557723000635 Walker A/P-loop; other site 557723000636 ATP binding site [chemical binding]; other site 557723000637 Q-loop/lid; other site 557723000638 ABC transporter signature motif; other site 557723000639 Walker B; other site 557723000640 D-loop; other site 557723000641 H-loop/switch region; other site 557723000642 TOBE domain; Region: TOBE_2; pfam08402 557723000643 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 557723000644 hypothetical protein; Provisional; Region: PRK14641 557723000645 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 557723000646 putative oligomer interface [polypeptide binding]; other site 557723000647 putative RNA binding site [nucleotide binding]; other site 557723000648 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 557723000649 NusA N-terminal domain; Region: NusA_N; pfam08529 557723000650 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 557723000651 RNA binding site [nucleotide binding]; other site 557723000652 homodimer interface [polypeptide binding]; other site 557723000653 NusA-like KH domain; Region: KH_5; pfam13184 557723000654 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 557723000655 G-X-X-G motif; other site 557723000656 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557723000657 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 557723000658 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 557723000659 translation initiation factor IF-2; Region: IF-2; TIGR00487 557723000660 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 557723000661 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 557723000662 G1 box; other site 557723000663 putative GEF interaction site [polypeptide binding]; other site 557723000664 GTP/Mg2+ binding site [chemical binding]; other site 557723000665 Switch I region; other site 557723000666 G2 box; other site 557723000667 G3 box; other site 557723000668 Switch II region; other site 557723000669 G4 box; other site 557723000670 G5 box; other site 557723000671 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 557723000672 Translation-initiation factor 2; Region: IF-2; pfam11987 557723000673 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 557723000674 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557723000675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723000676 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557723000677 putative effector binding pocket; other site 557723000678 dimerization interface [polypeptide binding]; other site 557723000679 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 557723000680 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 557723000681 active site 557723000682 interdomain interaction site; other site 557723000683 putative metal-binding site [ion binding]; other site 557723000684 nucleotide binding site [chemical binding]; other site 557723000685 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 557723000686 domain I; other site 557723000687 DNA binding groove [nucleotide binding] 557723000688 phosphate binding site [ion binding]; other site 557723000689 domain II; other site 557723000690 domain III; other site 557723000691 nucleotide binding site [chemical binding]; other site 557723000692 catalytic site [active] 557723000693 domain IV; other site 557723000694 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557723000695 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557723000696 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 557723000697 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 557723000698 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 557723000699 Sulfatase; Region: Sulfatase; cl17466 557723000700 hypothetical protein; Provisional; Region: PRK13689 557723000701 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 557723000702 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 557723000703 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 557723000704 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 557723000705 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 557723000706 Ligand Binding Site [chemical binding]; other site 557723000707 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 557723000708 active site residue [active] 557723000709 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 557723000710 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 557723000711 Substrate binding site; other site 557723000712 Mg++ binding site; other site 557723000713 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 557723000714 active site 557723000715 substrate binding site [chemical binding]; other site 557723000716 CoA binding site [chemical binding]; other site 557723000717 anti-sigma E factor; Provisional; Region: rseB; PRK09455 557723000718 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 557723000719 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 557723000720 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 557723000721 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 557723000722 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 557723000723 acyl-activating enzyme (AAE) consensus motif; other site 557723000724 putative AMP binding site [chemical binding]; other site 557723000725 putative active site [active] 557723000726 putative CoA binding site [chemical binding]; other site 557723000727 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 557723000728 Peptidase family M23; Region: Peptidase_M23; pfam01551 557723000729 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 557723000730 NodB motif; other site 557723000731 putative active site [active] 557723000732 putative catalytic site [active] 557723000733 Zn binding site [ion binding]; other site 557723000734 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 557723000735 Surface antigen; Region: Bac_surface_Ag; pfam01103 557723000736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 557723000737 Family of unknown function (DUF490); Region: DUF490; pfam04357 557723000738 Toxin ToxN, type III toxin-antitoxin system; Region: ToxN_toxin; pfam13958 557723000739 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 557723000740 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557723000741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723000742 Walker A/P-loop; other site 557723000743 ATP binding site [chemical binding]; other site 557723000744 Q-loop/lid; other site 557723000745 ABC transporter signature motif; other site 557723000746 Walker B; other site 557723000747 D-loop; other site 557723000748 H-loop/switch region; other site 557723000749 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 557723000750 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557723000751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723000752 Walker A/P-loop; other site 557723000753 ATP binding site [chemical binding]; other site 557723000754 Q-loop/lid; other site 557723000755 ABC transporter signature motif; other site 557723000756 Walker B; other site 557723000757 D-loop; other site 557723000758 H-loop/switch region; other site 557723000759 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 557723000760 active site 557723000761 8-oxo-dGMP binding site [chemical binding]; other site 557723000762 nudix motif; other site 557723000763 metal binding site [ion binding]; metal-binding site 557723000764 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 557723000765 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 557723000766 SEC-C motif; Region: SEC-C; pfam02810 557723000767 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 557723000768 Protein of unknown function (DUF721); Region: DUF721; cl02324 557723000769 NlpE N-terminal domain; Region: NlpE; pfam04170 557723000770 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 557723000771 catalytic center binding site [active] 557723000772 ATP binding site [chemical binding]; other site 557723000773 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 557723000774 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557723000775 active site 557723000776 NTP binding site [chemical binding]; other site 557723000777 metal binding triad [ion binding]; metal-binding site 557723000778 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557723000779 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 557723000780 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 557723000781 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 557723000782 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 557723000783 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 557723000784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723000785 dimer interface [polypeptide binding]; other site 557723000786 conserved gate region; other site 557723000787 putative PBP binding loops; other site 557723000788 ABC-ATPase subunit interface; other site 557723000789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723000790 dimer interface [polypeptide binding]; other site 557723000791 conserved gate region; other site 557723000792 putative PBP binding loops; other site 557723000793 ABC-ATPase subunit interface; other site 557723000794 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 557723000795 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 557723000796 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 557723000797 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 557723000798 Walker A/P-loop; other site 557723000799 ATP binding site [chemical binding]; other site 557723000800 Q-loop/lid; other site 557723000801 ABC transporter signature motif; other site 557723000802 Walker B; other site 557723000803 D-loop; other site 557723000804 H-loop/switch region; other site 557723000805 TOBE domain; Region: TOBE_2; pfam08402 557723000806 HemN family oxidoreductase; Provisional; Region: PRK05660 557723000807 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 557723000808 FeS/SAM binding site; other site 557723000809 HemN C-terminal domain; Region: HemN_C; pfam06969 557723000810 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 557723000811 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 557723000812 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 557723000813 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 557723000814 Trp operon repressor; Provisional; Region: PRK01381 557723000815 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 557723000816 Transglycosylase; Region: Transgly; cl17702 557723000817 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 557723000818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723000819 dimer interface [polypeptide binding]; other site 557723000820 conserved gate region; other site 557723000821 putative PBP binding loops; other site 557723000822 ABC-ATPase subunit interface; other site 557723000823 NMT1-like family; Region: NMT1_2; pfam13379 557723000824 NMT1/THI5 like; Region: NMT1; pfam09084 557723000825 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 557723000826 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 557723000827 Walker A/P-loop; other site 557723000828 ATP binding site [chemical binding]; other site 557723000829 Q-loop/lid; other site 557723000830 ABC transporter signature motif; other site 557723000831 Walker B; other site 557723000832 D-loop; other site 557723000833 H-loop/switch region; other site 557723000834 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 557723000835 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 557723000836 active site 557723000837 Uncharacterized conserved protein [Function unknown]; Region: COG2128 557723000838 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 557723000839 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 557723000840 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557723000841 condesin subunit F; Provisional; Region: PRK05260 557723000842 condesin subunit E; Provisional; Region: PRK05256 557723000843 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557723000844 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 557723000845 cofactor binding site; other site 557723000846 DNA binding site [nucleotide binding] 557723000847 substrate interaction site [chemical binding]; other site 557723000848 cell division protein MukB; Provisional; Region: mukB; PRK04863 557723000849 P-loop containing region of AAA domain; Region: AAA_29; cl17516 557723000850 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 557723000851 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 557723000852 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 557723000853 active site 557723000854 NTP binding site [chemical binding]; other site 557723000855 metal binding triad [ion binding]; metal-binding site 557723000856 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 557723000857 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557723000858 Zn2+ binding site [ion binding]; other site 557723000859 Mg2+ binding site [ion binding]; other site 557723000860 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 557723000861 dimer interface [polypeptide binding]; other site 557723000862 FMN binding site [chemical binding]; other site 557723000863 Protein of unknown function (DUF406); Region: DUF406; pfam04175 557723000864 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 557723000865 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 557723000866 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 557723000867 putative catalytic site [active] 557723000868 CdtC interface [polypeptide binding]; other site 557723000869 heterotrimer interface [polypeptide binding]; other site 557723000870 CdtA interface [polypeptide binding]; other site 557723000871 putative metal binding site [ion binding]; other site 557723000872 putative phosphate binding site [ion binding]; other site 557723000873 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 557723000874 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 557723000875 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557723000876 active site 557723000877 HIGH motif; other site 557723000878 nucleotide binding site [chemical binding]; other site 557723000879 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 557723000880 KMSKS motif; other site 557723000881 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 557723000882 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 557723000883 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 557723000884 active site 557723000885 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 557723000886 DHH family; Region: DHH; pfam01368 557723000887 DHHA1 domain; Region: DHHA1; pfam02272 557723000888 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 557723000889 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 557723000890 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 557723000891 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557723000892 ligand binding site [chemical binding]; other site 557723000893 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 557723000894 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 557723000895 active site 557723000896 motif I; other site 557723000897 motif II; other site 557723000898 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 557723000899 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 557723000900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557723000901 Coenzyme A binding pocket [chemical binding]; other site 557723000902 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 557723000903 dihydrodipicolinate synthase; Region: dapA; TIGR00674 557723000904 dimer interface [polypeptide binding]; other site 557723000905 active site 557723000906 catalytic residue [active] 557723000907 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 557723000908 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 557723000909 dimer interface [polypeptide binding]; other site 557723000910 putative anticodon binding site; other site 557723000911 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 557723000912 motif 1; other site 557723000913 active site 557723000914 motif 2; other site 557723000915 motif 3; other site 557723000916 hypothetical protein; Validated; Region: PRK02101 557723000917 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 557723000918 rRNA interaction site [nucleotide binding]; other site 557723000919 S8 interaction site; other site 557723000920 putative laminin-1 binding site; other site 557723000921 elongation factor Ts; Provisional; Region: tsf; PRK09377 557723000922 UBA/TS-N domain; Region: UBA; pfam00627 557723000923 Elongation factor TS; Region: EF_TS; pfam00889 557723000924 Elongation factor TS; Region: EF_TS; pfam00889 557723000925 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 557723000926 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 557723000927 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 557723000928 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 557723000929 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 557723000930 molybdopterin cofactor binding site; other site 557723000931 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 557723000932 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 557723000933 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 557723000934 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 557723000935 glycogen branching enzyme; Provisional; Region: PRK05402 557723000936 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 557723000937 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 557723000938 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 557723000939 active site 557723000940 catalytic site [active] 557723000941 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 557723000942 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 557723000943 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 557723000944 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 557723000945 active site 557723000946 catalytic site [active] 557723000947 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 557723000948 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 557723000949 ligand binding site; other site 557723000950 oligomer interface; other site 557723000951 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 557723000952 dimer interface [polypeptide binding]; other site 557723000953 N-terminal domain interface [polypeptide binding]; other site 557723000954 sulfate 1 binding site; other site 557723000955 glycogen synthase; Provisional; Region: glgA; PRK00654 557723000956 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 557723000957 ADP-binding pocket [chemical binding]; other site 557723000958 homodimer interface [polypeptide binding]; other site 557723000959 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 557723000960 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 557723000961 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 557723000962 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 557723000963 active site 557723000964 Domain of unknown function (DUF1919); Region: DUF1919; pfam08942 557723000965 BRO family, N-terminal domain; Region: Bro-N; smart01040 557723000966 GMP synthase; Reviewed; Region: guaA; PRK00074 557723000967 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 557723000968 AMP/PPi binding site [chemical binding]; other site 557723000969 candidate oxyanion hole; other site 557723000970 catalytic triad [active] 557723000971 potential glutamine specificity residues [chemical binding]; other site 557723000972 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 557723000973 ATP Binding subdomain [chemical binding]; other site 557723000974 Ligand Binding sites [chemical binding]; other site 557723000975 Dimerization subdomain; other site 557723000976 Flagellin N-methylase; Region: FliB; pfam03692 557723000977 PLC-beta C terminal; Region: PLC-beta_C; pfam08703 557723000978 hypothetical protein; Provisional; Region: PRK10236 557723000979 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 557723000980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 557723000981 Domain of unknown function (DUF4116); Region: DUF4116; pfam13475 557723000982 Predicted transcriptional regulator [Transcription]; Region: COG2378 557723000983 HTH domain; Region: HTH_11; pfam08279 557723000984 WYL domain; Region: WYL; pfam13280 557723000985 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 557723000986 non-specific DNA binding site [nucleotide binding]; other site 557723000987 salt bridge; other site 557723000988 sequence-specific DNA binding site [nucleotide binding]; other site 557723000989 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 557723000990 putative catalytic site [active] 557723000991 putative phosphate binding site [ion binding]; other site 557723000992 active site 557723000993 metal binding site A [ion binding]; metal-binding site 557723000994 DNA binding site [nucleotide binding] 557723000995 putative AP binding site [nucleotide binding]; other site 557723000996 putative metal binding site B [ion binding]; other site 557723000997 Predicted permease [General function prediction only]; Region: COG2056 557723000998 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 557723000999 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 557723001000 transmembrane helices; other site 557723001001 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 557723001002 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 557723001003 Ligand Binding Site [chemical binding]; other site 557723001004 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 557723001005 Flavoprotein; Region: Flavoprotein; pfam02441 557723001006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 557723001007 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 557723001008 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557723001009 metal binding triad; other site 557723001010 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557723001011 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557723001012 metal binding triad; other site 557723001013 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557723001014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 557723001015 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 557723001016 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 557723001017 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 557723001018 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 557723001019 dimerization interface [polypeptide binding]; other site 557723001020 putative DNA binding site [nucleotide binding]; other site 557723001021 putative Zn2+ binding site [ion binding]; other site 557723001022 AsnC family; Region: AsnC_trans_reg; pfam01037 557723001023 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 557723001024 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 557723001025 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557723001026 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 557723001027 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 557723001028 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557723001029 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557723001030 Glycoprotease family; Region: Peptidase_M22; pfam00814 557723001031 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 557723001032 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 557723001033 putative catalytic site [active] 557723001034 CdtC interface [polypeptide binding]; other site 557723001035 heterotrimer interface [polypeptide binding]; other site 557723001036 CdtA interface [polypeptide binding]; other site 557723001037 putative metal binding site [ion binding]; other site 557723001038 putative phosphate binding site [ion binding]; other site 557723001039 Cytolethal distending toxin A/C family; Region: CDtoxinA; pfam03498 557723001040 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 557723001041 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 557723001042 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 557723001043 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 557723001044 Mg2+ binding site [ion binding]; other site 557723001045 G-X-G motif; other site 557723001046 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 557723001047 anchoring element; other site 557723001048 dimer interface [polypeptide binding]; other site 557723001049 ATP binding site [chemical binding]; other site 557723001050 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 557723001051 active site 557723001052 putative metal-binding site [ion binding]; other site 557723001053 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557723001054 Hemerythrin-like domain; Region: Hr-like; cd12108 557723001055 Fe binding site [ion binding]; other site 557723001056 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 557723001057 CPxP motif; other site 557723001058 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 557723001059 hypothetical protein; Provisional; Region: PRK05255 557723001060 peptidase PmbA; Provisional; Region: PRK11040 557723001061 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 557723001062 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 557723001063 substrate binding site [chemical binding]; other site 557723001064 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 557723001065 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 557723001066 substrate binding site [chemical binding]; other site 557723001067 ligand binding site [chemical binding]; other site 557723001068 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 557723001069 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 557723001070 putative substrate translocation pore; other site 557723001071 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 557723001072 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 557723001073 RNA binding surface [nucleotide binding]; other site 557723001074 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 557723001075 active site 557723001076 uracil binding [chemical binding]; other site 557723001077 two-component sensor protein; Provisional; Region: cpxA; PRK09470 557723001078 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 557723001079 dimerization interface [polypeptide binding]; other site 557723001080 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 557723001081 dimer interface [polypeptide binding]; other site 557723001082 phosphorylation site [posttranslational modification] 557723001083 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 557723001084 ATP binding site [chemical binding]; other site 557723001085 Mg2+ binding site [ion binding]; other site 557723001086 G-X-G motif; other site 557723001087 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 557723001088 active site 557723001089 phosphorylation site [posttranslational modification] 557723001090 intermolecular recognition site; other site 557723001091 dimerization interface [polypeptide binding]; other site 557723001092 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 557723001093 DNA binding site [nucleotide binding] 557723001094 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 557723001095 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 557723001096 homodimer interface [polypeptide binding]; other site 557723001097 metal binding site [ion binding]; metal-binding site 557723001098 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 557723001099 homodimer interface [polypeptide binding]; other site 557723001100 active site 557723001101 putative chemical substrate binding site [chemical binding]; other site 557723001102 metal binding site [ion binding]; metal-binding site 557723001103 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 557723001104 proline aminopeptidase P II; Provisional; Region: PRK10879 557723001105 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 557723001106 active site 557723001107 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 557723001108 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 557723001109 putative active site [active] 557723001110 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 557723001111 homodimer interface [polypeptide binding]; other site 557723001112 substrate-cofactor binding pocket; other site 557723001113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723001114 catalytic residue [active] 557723001115 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723001116 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723001117 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723001118 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557723001119 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557723001120 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557723001121 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557723001122 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723001123 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 557723001124 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 557723001125 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 557723001126 ATP binding site [chemical binding]; other site 557723001127 putative Mg++ binding site [ion binding]; other site 557723001128 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 557723001129 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 557723001130 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 557723001131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723001132 homodimer interface [polypeptide binding]; other site 557723001133 catalytic residue [active] 557723001134 DinI-like family; Region: DinI; cl11630 557723001135 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 557723001136 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 557723001137 putative dimer interface [polypeptide binding]; other site 557723001138 putative anticodon binding site; other site 557723001139 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 557723001140 homodimer interface [polypeptide binding]; other site 557723001141 motif 1; other site 557723001142 motif 2; other site 557723001143 active site 557723001144 motif 3; other site 557723001145 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 557723001146 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 557723001147 High-affinity nickel-transport protein; Region: NicO; cl00964 557723001148 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557723001149 exopolyphosphatase; Provisional; Region: PRK10854 557723001150 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 557723001151 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 557723001152 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 557723001153 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 557723001154 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 557723001155 active site 557723001156 hinge; other site 557723001157 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 557723001158 DNA-binding site [nucleotide binding]; DNA binding site 557723001159 RNA-binding motif; other site 557723001160 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 557723001161 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 557723001162 catalytic triad [active] 557723001163 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 557723001164 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 557723001165 active site 557723001166 motif I; other site 557723001167 motif II; other site 557723001168 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723001169 active site 557723001170 lytic murein transglycosylase; Provisional; Region: PRK11619 557723001171 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557723001172 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557723001173 catalytic residue [active] 557723001174 Cation efflux family; Region: Cation_efflux; cl00316 557723001175 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 557723001176 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723001177 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723001178 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723001179 O-succinylbenzoate synthase; Provisional; Region: PRK05105 557723001180 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 557723001181 active site 557723001182 hypothetical protein; Provisional; Region: PRK05248 557723001183 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 557723001184 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557723001185 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 557723001186 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 557723001187 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557723001188 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 557723001189 dimer interface [polypeptide binding]; other site 557723001190 ssDNA binding site [nucleotide binding]; other site 557723001191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557723001192 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 557723001193 AAA domain; Region: AAA_14; pfam13173 557723001194 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 557723001195 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 557723001196 ATP binding site [chemical binding]; other site 557723001197 Mg++ binding site [ion binding]; other site 557723001198 motif III; other site 557723001199 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 557723001200 nucleotide binding region [chemical binding]; other site 557723001201 ATP-binding site [chemical binding]; other site 557723001202 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 557723001203 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 557723001204 non-specific DNA binding site [nucleotide binding]; other site 557723001205 salt bridge; other site 557723001206 sequence-specific DNA binding site [nucleotide binding]; other site 557723001207 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 557723001208 ornithine carbamoyltransferase; Validated; Region: PRK02102 557723001209 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 557723001210 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 557723001211 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 557723001212 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 557723001213 dimer interface [polypeptide binding]; other site 557723001214 active site 557723001215 glycine-pyridoxal phosphate binding site [chemical binding]; other site 557723001216 folate binding site [chemical binding]; other site 557723001217 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 557723001218 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 557723001219 generic binding surface II; other site 557723001220 generic binding surface I; other site 557723001221 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 557723001222 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 557723001223 CAP-like domain; other site 557723001224 active site 557723001225 primary dimer interface [polypeptide binding]; other site 557723001226 acyl-CoA esterase; Provisional; Region: PRK10673 557723001227 PGAP1-like protein; Region: PGAP1; pfam07819 557723001228 replication initiation regulator SeqA; Provisional; Region: PRK11187 557723001229 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 557723001230 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 557723001231 acyl-activating enzyme (AAE) consensus motif; other site 557723001232 putative AMP binding site [chemical binding]; other site 557723001233 putative active site [active] 557723001234 putative CoA binding site [chemical binding]; other site 557723001235 hypothetical protein; Provisional; Region: PRK11281 557723001236 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 557723001237 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557723001238 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 557723001239 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 557723001240 Tetramer interface [polypeptide binding]; other site 557723001241 active site 557723001242 FMN-binding site [chemical binding]; other site 557723001243 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 557723001244 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 557723001245 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 557723001246 sequence-specific DNA binding site [nucleotide binding]; other site 557723001247 salt bridge; other site 557723001248 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 557723001249 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557723001250 ribonuclease D; Provisional; Region: PRK10829 557723001251 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 557723001252 catalytic site [active] 557723001253 putative active site [active] 557723001254 putative substrate binding site [chemical binding]; other site 557723001255 HRDC domain; Region: HRDC; pfam00570 557723001256 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 557723001257 propionate/acetate kinase; Provisional; Region: PRK12379 557723001258 phosphate acetyltransferase; Reviewed; Region: PRK05632 557723001259 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557723001260 DRTGG domain; Region: DRTGG; pfam07085 557723001261 phosphate acetyltransferase; Region: pta; TIGR00651 557723001262 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 557723001263 zinc binding site [ion binding]; other site 557723001264 putative ligand binding site [chemical binding]; other site 557723001265 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 557723001266 stringent starvation protein A; Provisional; Region: sspA; PRK09481 557723001267 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557723001268 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 557723001269 dimer interface [polypeptide binding]; other site 557723001270 N-terminal domain interface [polypeptide binding]; other site 557723001271 hypothetical protein; Provisional; Region: PRK05423 557723001272 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 557723001273 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723001274 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 557723001275 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 557723001276 PemK-like protein; Region: PemK; pfam02452 557723001277 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 557723001278 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 557723001279 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 557723001280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723001281 homodimer interface [polypeptide binding]; other site 557723001282 catalytic residue [active] 557723001283 EamA-like transporter family; Region: EamA; pfam00892 557723001284 flavoprotein, HI0933 family; Region: TIGR00275 557723001285 N-acetylneuraminate lyase; Provisional; Region: PRK04147 557723001286 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 557723001287 inhibitor site; inhibition site 557723001288 active site 557723001289 dimer interface [polypeptide binding]; other site 557723001290 catalytic residue [active] 557723001291 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557723001292 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557723001293 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 557723001294 putative active site [active] 557723001295 Domain of unknown function (DUF386); Region: DUF386; pfam04074 557723001296 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 557723001297 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 557723001298 non-specific DNA binding site [nucleotide binding]; other site 557723001299 salt bridge; other site 557723001300 sequence-specific DNA binding site [nucleotide binding]; other site 557723001301 Phage-related protein [Function unknown]; Region: gp18; COG4672 557723001302 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 557723001303 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 557723001304 Phage minor tail protein; Region: Phage_min_tail; pfam05939 557723001305 Preprotein translocase SecG subunit; Region: SecG; pfam03840 557723001306 DNA topoisomerase III; Provisional; Region: PRK07726 557723001307 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 557723001308 active site 557723001309 putative interdomain interaction site [polypeptide binding]; other site 557723001310 putative metal-binding site [ion binding]; other site 557723001311 putative nucleotide binding site [chemical binding]; other site 557723001312 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 557723001313 domain I; other site 557723001314 DNA binding groove [nucleotide binding] 557723001315 phosphate binding site [ion binding]; other site 557723001316 domain II; other site 557723001317 domain III; other site 557723001318 nucleotide binding site [chemical binding]; other site 557723001319 catalytic site [active] 557723001320 domain IV; other site 557723001321 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 557723001322 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 557723001323 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 557723001324 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 557723001325 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 557723001326 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 557723001327 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 557723001328 FeS/SAM binding site; other site 557723001329 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 557723001330 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 557723001331 trimer interface [polypeptide binding]; other site 557723001332 dimer interface [polypeptide binding]; other site 557723001333 putative active site [active] 557723001334 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 557723001335 MoaE interaction surface [polypeptide binding]; other site 557723001336 MoeB interaction surface [polypeptide binding]; other site 557723001337 thiocarboxylated glycine; other site 557723001338 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 557723001339 MoaE homodimer interface [polypeptide binding]; other site 557723001340 MoaD interaction [polypeptide binding]; other site 557723001341 active site residues [active] 557723001342 metal-binding heat shock protein; Provisional; Region: PRK00016 557723001343 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 557723001344 Helicase; Region: Helicase_RecD; pfam05127 557723001345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557723001346 Coenzyme A binding pocket [chemical binding]; other site 557723001347 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 557723001348 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 557723001349 ligand binding site [chemical binding]; other site 557723001350 calcium binding site [ion binding]; other site 557723001351 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557723001352 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 557723001353 Walker A/P-loop; other site 557723001354 ATP binding site [chemical binding]; other site 557723001355 Q-loop/lid; other site 557723001356 ABC transporter signature motif; other site 557723001357 Walker B; other site 557723001358 D-loop; other site 557723001359 H-loop/switch region; other site 557723001360 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557723001361 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557723001362 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557723001363 TM-ABC transporter signature motif; other site 557723001364 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 557723001365 lipoprotein, YaeC family; Region: TIGR00363 557723001366 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 557723001367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723001368 dimer interface [polypeptide binding]; other site 557723001369 conserved gate region; other site 557723001370 ABC-ATPase subunit interface; other site 557723001371 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 557723001372 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 557723001373 Walker A/P-loop; other site 557723001374 ATP binding site [chemical binding]; other site 557723001375 Q-loop/lid; other site 557723001376 ABC transporter signature motif; other site 557723001377 Walker B; other site 557723001378 D-loop; other site 557723001379 H-loop/switch region; other site 557723001380 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 557723001381 hypothetical protein; Provisional; Region: PRK11111 557723001382 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 557723001383 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 557723001384 peptide binding site [polypeptide binding]; other site 557723001385 antiporter inner membrane protein; Provisional; Region: PRK11670 557723001386 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 557723001387 Walker A motif; other site 557723001388 acetylornithine deacetylase; Provisional; Region: PRK05111 557723001389 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 557723001390 metal binding site [ion binding]; metal-binding site 557723001391 putative dimer interface [polypeptide binding]; other site 557723001392 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 557723001393 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 557723001394 ATP binding site [chemical binding]; other site 557723001395 substrate interface [chemical binding]; other site 557723001396 translation initiation factor Sui1; Validated; Region: PRK06824 557723001397 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 557723001398 putative rRNA binding site [nucleotide binding]; other site 557723001399 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 557723001400 active site 557723001401 dimer interface [polypeptide binding]; other site 557723001402 tetratricopeptide repeat protein; Provisional; Region: PRK11788 557723001403 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 557723001404 binding surface 557723001405 TPR motif; other site 557723001406 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 557723001407 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 557723001408 IHF dimer interface [polypeptide binding]; other site 557723001409 IHF - DNA interface [nucleotide binding]; other site 557723001410 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 557723001411 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 557723001412 RNA binding site [nucleotide binding]; other site 557723001413 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 557723001414 RNA binding site [nucleotide binding]; other site 557723001415 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 557723001416 RNA binding site [nucleotide binding]; other site 557723001417 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 557723001418 RNA binding site [nucleotide binding]; other site 557723001419 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 557723001420 RNA binding site [nucleotide binding]; other site 557723001421 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 557723001422 RNA binding site [nucleotide binding]; other site 557723001423 cytidylate kinase; Provisional; Region: cmk; PRK00023 557723001424 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 557723001425 CMP-binding site; other site 557723001426 The sites determining sugar specificity; other site 557723001427 serine endoprotease; Provisional; Region: PRK10898 557723001428 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557723001429 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 557723001430 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 557723001431 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 557723001432 active site 557723001433 tetramer interface; other site 557723001434 carbon storage regulator; Provisional; Region: PRK01712 557723001435 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 557723001436 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 557723001437 motif 1; other site 557723001438 active site 557723001439 motif 2; other site 557723001440 motif 3; other site 557723001441 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 557723001442 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 557723001443 Ligand Binding Site [chemical binding]; other site 557723001444 ComEC family competence protein; Provisional; Region: PRK11539 557723001445 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 557723001446 Competence protein; Region: Competence; pfam03772 557723001447 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 557723001448 YciI-like protein; Reviewed; Region: PRK11370 557723001449 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 557723001450 intracellular septation protein A; Reviewed; Region: PRK00259 557723001451 Protein of unknown function, DUF412; Region: DUF412; cl01183 557723001452 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 557723001453 nucleoside/Zn binding site; other site 557723001454 dimer interface [polypeptide binding]; other site 557723001455 catalytic motif [active] 557723001456 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 557723001457 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 557723001458 ATP binding site [chemical binding]; other site 557723001459 Mg++ binding site [ion binding]; other site 557723001460 motif III; other site 557723001461 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 557723001462 nucleotide binding region [chemical binding]; other site 557723001463 ATP-binding site [chemical binding]; other site 557723001464 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 557723001465 putative RNA binding site [nucleotide binding]; other site 557723001466 lipoprotein NlpI; Provisional; Region: PRK11189 557723001467 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 557723001468 binding surface 557723001469 TPR motif; other site 557723001470 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 557723001471 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 557723001472 RNase E interface [polypeptide binding]; other site 557723001473 trimer interface [polypeptide binding]; other site 557723001474 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 557723001475 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 557723001476 RNase E interface [polypeptide binding]; other site 557723001477 trimer interface [polypeptide binding]; other site 557723001478 active site 557723001479 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 557723001480 putative nucleic acid binding region [nucleotide binding]; other site 557723001481 G-X-X-G motif; other site 557723001482 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 557723001483 RNA binding site [nucleotide binding]; other site 557723001484 domain interface; other site 557723001485 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 557723001486 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 557723001487 active site 557723001488 metal binding site [ion binding]; metal-binding site 557723001489 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 557723001490 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 557723001491 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 557723001492 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 557723001493 putative active site [active] 557723001494 heme pocket [chemical binding]; other site 557723001495 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 557723001496 dimer interface [polypeptide binding]; other site 557723001497 phosphorylation site [posttranslational modification] 557723001498 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 557723001499 ATP binding site [chemical binding]; other site 557723001500 Mg2+ binding site [ion binding]; other site 557723001501 G-X-G motif; other site 557723001502 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 557723001503 active site 557723001504 phosphorylation site [posttranslational modification] 557723001505 intermolecular recognition site; other site 557723001506 dimerization interface [polypeptide binding]; other site 557723001507 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 557723001508 putative binding surface; other site 557723001509 active site 557723001510 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 557723001511 OstA-like protein; Region: OstA; pfam03968 557723001512 Organic solvent tolerance protein; Region: OstA_C; pfam04453 557723001513 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 557723001514 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 557723001515 FeS/SAM binding site; other site 557723001516 HemN C-terminal domain; Region: HemN_C; pfam06969 557723001517 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 557723001518 Der GTPase activator; Provisional; Region: PRK05244 557723001519 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 557723001520 putative active site [active] 557723001521 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557723001522 EamA-like transporter family; Region: EamA; cl17759 557723001523 EamA-like transporter family; Region: EamA; pfam00892 557723001524 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 557723001525 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 557723001526 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 557723001527 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 557723001528 RNA binding site [nucleotide binding]; other site 557723001529 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 557723001530 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557723001531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557723001532 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557723001533 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 557723001534 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 557723001535 E3 interaction surface; other site 557723001536 lipoyl attachment site [posttranslational modification]; other site 557723001537 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 557723001538 E3 interaction surface; other site 557723001539 lipoyl attachment site [posttranslational modification]; other site 557723001540 e3 binding domain; Region: E3_binding; pfam02817 557723001541 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557723001542 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 557723001543 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 557723001544 dimer interface [polypeptide binding]; other site 557723001545 TPP-binding site [chemical binding]; other site 557723001546 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 557723001547 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 557723001548 active site 557723001549 homodimer interface [polypeptide binding]; other site 557723001550 homotetramer interface [polypeptide binding]; other site 557723001551 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 557723001552 ATP-grasp domain; Region: ATP-grasp; pfam02222 557723001553 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 557723001554 substrate binding site [chemical binding]; other site 557723001555 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 557723001556 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 557723001557 S-adenosylmethionine binding site [chemical binding]; other site 557723001558 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 557723001559 S-adenosylmethionine synthetase; Validated; Region: PRK05250 557723001560 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 557723001561 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 557723001562 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 557723001563 Uncharacterized conserved protein [Function unknown]; Region: COG4121 557723001564 hydroxyglutarate oxidase; Provisional; Region: PRK11728 557723001565 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 557723001566 Uncharacterized conserved protein [Function unknown]; Region: COG0327 557723001567 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 557723001568 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 557723001569 dimer interface [polypeptide binding]; other site 557723001570 putative functional site; other site 557723001571 putative MPT binding site; other site 557723001572 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723001573 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723001574 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723001575 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 557723001576 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 557723001577 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 557723001578 Walker A motif; other site 557723001579 ATP binding site [chemical binding]; other site 557723001580 Walker B motif; other site 557723001581 arginine finger; other site 557723001582 Peptidase family M41; Region: Peptidase_M41; pfam01434 557723001583 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 557723001584 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 557723001585 S-adenosylmethionine binding site [chemical binding]; other site 557723001586 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 557723001587 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 557723001588 NAD binding site [chemical binding]; other site 557723001589 homotetramer interface [polypeptide binding]; other site 557723001590 homodimer interface [polypeptide binding]; other site 557723001591 substrate binding site [chemical binding]; other site 557723001592 active site 557723001593 Fic/DOC family; Region: Fic; pfam02661 557723001594 Predicted transcriptional regulator [Transcription]; Region: COG2944 557723001595 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 557723001596 non-specific DNA binding site [nucleotide binding]; other site 557723001597 salt bridge; other site 557723001598 sequence-specific DNA binding site [nucleotide binding]; other site 557723001599 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 557723001600 exoribonuclease II; Provisional; Region: PRK05054 557723001601 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 557723001602 RNB domain; Region: RNB; pfam00773 557723001603 S1 RNA binding domain; Region: S1; pfam00575 557723001604 RNA binding site [nucleotide binding]; other site 557723001605 murein transglycosylase A; Provisional; Region: mltA; PRK11162 557723001606 MltA specific insert domain; Region: MltA; smart00925 557723001607 3D domain; Region: 3D; pfam06725 557723001608 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 557723001609 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 557723001610 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 557723001611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557723001612 DNA binding site [nucleotide binding] 557723001613 domain linker motif; other site 557723001614 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 557723001615 dimerization interface [polypeptide binding]; other site 557723001616 ligand binding site [chemical binding]; other site 557723001617 HemK family putative methylases; Region: hemK_fam; TIGR00536 557723001618 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 557723001619 S-adenosylmethionine binding site [chemical binding]; other site 557723001620 hypothetical protein; Provisional; Region: PRK04946 557723001621 Smr domain; Region: Smr; pfam01713 557723001622 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 557723001623 aromatic amino acid transport protein; Region: araaP; TIGR00837 557723001624 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 557723001625 aromatic amino acid transport protein; Region: araaP; TIGR00837 557723001626 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 557723001627 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557723001628 catalytic residues [active] 557723001629 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 557723001630 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 557723001631 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 557723001632 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 557723001633 SelR domain; Region: SelR; pfam01641 557723001634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557723001635 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 557723001636 DNA binding residues [nucleotide binding] 557723001637 Putative zinc-finger; Region: zf-HC2; pfam13490 557723001638 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 557723001639 terminase endonuclease subunit; Provisional; Region: M; PHA02537 557723001640 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 557723001641 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 557723001642 catalytic residues [active] 557723001643 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 557723001644 DksA-like zinc finger domain containing protein; Region: PHA00080 557723001645 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 557723001646 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 557723001647 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 557723001648 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; pfam13957 557723001649 YcfA-like protein; Region: YcfA; pfam07927 557723001650 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 557723001651 ECF sigma factor; Region: Sigma70_ECF; pfam07638 557723001652 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 557723001653 NinB protein; Region: NinB; pfam05772 557723001654 Replication protein P; Region: Phage_lambda_P; pfam06992 557723001655 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 557723001656 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 557723001657 non-specific DNA binding site [nucleotide binding]; other site 557723001658 salt bridge; other site 557723001659 sequence-specific DNA binding site [nucleotide binding]; other site 557723001660 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 557723001661 Catalytic site [active] 557723001662 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 557723001663 YcfA-like protein; Region: YcfA; pfam07927 557723001664 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 557723001665 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 557723001666 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 557723001667 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 557723001668 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 557723001669 active site 557723001670 RecT family; Region: RecT; cl04285 557723001671 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 557723001672 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 557723001673 dimer interface [polypeptide binding]; other site 557723001674 ssDNA binding site [nucleotide binding]; other site 557723001675 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557723001676 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 557723001677 LexA regulated protein; Provisional; Region: PRK11675 557723001678 Phage-related protein, tail component [Function unknown]; Region: COG4733 557723001679 Putative phage tail protein; Region: Phage-tail_3; pfam13550 557723001680 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 557723001681 Prophage antirepressor [Transcription]; Region: COG3617 557723001682 BRO family, N-terminal domain; Region: Bro-N; smart01040 557723001683 Phage-related protein, tail component [Function unknown]; Region: COG4723 557723001684 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 557723001685 MPN+ (JAMM) motif; other site 557723001686 Zinc-binding site [ion binding]; other site 557723001687 NlpC/P60 family; Region: NLPC_P60; cl17555 557723001688 Phage-related protein [Function unknown]; Region: gp18; COG4672 557723001689 Phage minor tail protein; Region: Phage_min_tail; cl01940 557723001690 tape measure domain; Region: tape_meas_nterm; TIGR02675 557723001691 Phage-related minor tail protein [Function unknown]; Region: COG5281 557723001692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 557723001693 RelB antitoxin; Region: RelB; cl01171 557723001694 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 557723001695 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 557723001696 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 557723001697 ATP-binding sugar transporter from pro-phage; Region: Gifsy-2; pfam13856 557723001698 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 557723001699 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 557723001700 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 557723001701 oligomer interface [polypeptide binding]; other site 557723001702 active site residues [active] 557723001703 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 557723001704 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 557723001705 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 557723001706 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 557723001707 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 557723001708 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 557723001709 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 557723001710 catalytic residues [active] 557723001711 ECF sigma factor; Region: Sigma70_ECF; pfam07638 557723001712 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 557723001713 NinB protein; Region: NinB; pfam05772 557723001714 Replication protein P; Region: Phage_lambda_P; pfam06992 557723001715 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 557723001716 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 557723001717 sequence-specific DNA binding site [nucleotide binding]; other site 557723001718 salt bridge; other site 557723001719 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 557723001720 non-specific DNA binding site [nucleotide binding]; other site 557723001721 Predicted transcriptional regulator [Transcription]; Region: COG2932 557723001722 salt bridge; other site 557723001723 sequence-specific DNA binding site [nucleotide binding]; other site 557723001724 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 557723001725 Catalytic site [active] 557723001726 KilA-N domain; Region: KilA-N; pfam04383 557723001727 AAA domain; Region: AAA_21; pfam13304 557723001728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723001729 Walker B; other site 557723001730 D-loop; other site 557723001731 H-loop/switch region; other site 557723001732 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 557723001733 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 557723001734 non-specific DNA binding site [nucleotide binding]; other site 557723001735 sequence-specific DNA binding site [nucleotide binding]; other site 557723001736 salt bridge; other site 557723001737 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 557723001738 Domain of unknown function (DUF3560); Region: DUF3560; pfam12083 557723001739 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 557723001740 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 557723001741 active site 557723001742 metal binding site [ion binding]; metal-binding site 557723001743 Transglycosylase SLT domain; Region: SLT_2; pfam13406 557723001744 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557723001745 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557723001746 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 557723001747 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 557723001748 RNA binding site [nucleotide binding]; other site 557723001749 active site 557723001750 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 557723001751 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 557723001752 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 557723001753 catalytic triad [active] 557723001754 putative active site [active] 557723001755 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 557723001756 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 557723001757 Autotransporter beta-domain; Region: Autotransporter; pfam03797 557723001758 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 557723001759 5S rRNA interface [nucleotide binding]; other site 557723001760 CTC domain interface [polypeptide binding]; other site 557723001761 L16 interface [polypeptide binding]; other site 557723001762 glycogen phosphorylase; Provisional; Region: PRK14986 557723001763 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 557723001764 homodimer interface [polypeptide binding]; other site 557723001765 active site pocket [active] 557723001766 Lysine efflux permease [General function prediction only]; Region: COG1279 557723001767 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 557723001768 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 557723001769 TPP-binding site [chemical binding]; other site 557723001770 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 557723001771 dimer interface [polypeptide binding]; other site 557723001772 PYR/PP interface [polypeptide binding]; other site 557723001773 TPP binding site [chemical binding]; other site 557723001774 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 557723001775 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 557723001776 E3 interaction surface; other site 557723001777 lipoyl attachment site [posttranslational modification]; other site 557723001778 e3 binding domain; Region: E3_binding; pfam02817 557723001779 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 557723001780 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 557723001781 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 557723001782 CoA-ligase; Region: Ligase_CoA; pfam00549 557723001783 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 557723001784 CoA binding domain; Region: CoA_binding; pfam02629 557723001785 CoA-ligase; Region: Ligase_CoA; pfam00549 557723001786 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 557723001787 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 557723001788 TrkA-N domain; Region: TrkA_N; pfam02254 557723001789 seryl-tRNA synthetase; Provisional; Region: PRK05431 557723001790 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 557723001791 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 557723001792 dimer interface [polypeptide binding]; other site 557723001793 active site 557723001794 motif 1; other site 557723001795 motif 2; other site 557723001796 motif 3; other site 557723001797 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 557723001798 putative active site [active] 557723001799 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 557723001800 SmpB-tmRNA interface; other site 557723001801 YcjX-like family, DUF463; Region: DUF463; pfam04317 557723001802 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 557723001803 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 557723001804 selenophosphate synthetase; Provisional; Region: PRK00943 557723001805 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 557723001806 dimerization interface [polypeptide binding]; other site 557723001807 putative ATP binding site [chemical binding]; other site 557723001808 Domain of unknown function; Region: DUF331; cl01149 557723001809 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557723001810 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 557723001811 S-adenosylmethionine binding site [chemical binding]; other site 557723001812 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 557723001813 Domain of unknown function DUF20; Region: UPF0118; pfam01594 557723001814 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 557723001815 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 557723001816 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 557723001817 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 557723001818 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 557723001819 Sulfatase; Region: Sulfatase; pfam00884 557723001820 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 557723001821 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 557723001822 MOSC domain; Region: MOSC; pfam03473 557723001823 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 557723001824 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557723001825 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557723001826 substrate binding pocket [chemical binding]; other site 557723001827 chain length determination region; other site 557723001828 substrate-Mg2+ binding site; other site 557723001829 catalytic residues [active] 557723001830 aspartate-rich region 1; other site 557723001831 active site lid residues [active] 557723001832 aspartate-rich region 2; other site 557723001833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 557723001834 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 557723001835 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 557723001836 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 557723001837 substrate binding site [chemical binding]; other site 557723001838 oxyanion hole (OAH) forming residues; other site 557723001839 trimer interface [polypeptide binding]; other site 557723001840 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 557723001841 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 557723001842 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 557723001843 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 557723001844 dimer interface [polypeptide binding]; other site 557723001845 active site 557723001846 Uncharacterized conserved protein [Function unknown]; Region: COG1556 557723001847 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 557723001848 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 557723001849 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 557723001850 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 557723001851 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557723001852 Cysteine-rich domain; Region: CCG; pfam02754 557723001853 Cysteine-rich domain; Region: CCG; pfam02754 557723001854 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 557723001855 L-lactate permease; Region: Lactate_perm; cl00701 557723001856 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 557723001857 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 557723001858 folate binding site [chemical binding]; other site 557723001859 NADP+ binding site [chemical binding]; other site 557723001860 gamma-glutamyl kinase; Provisional; Region: PRK05429 557723001861 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 557723001862 nucleotide binding site [chemical binding]; other site 557723001863 homotetrameric interface [polypeptide binding]; other site 557723001864 putative phosphate binding site [ion binding]; other site 557723001865 putative allosteric binding site; other site 557723001866 PUA domain; Region: PUA; pfam01472 557723001867 hypothetical protein; Provisional; Region: PRK10621 557723001868 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557723001869 endonuclease III; Provisional; Region: PRK10702 557723001870 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557723001871 minor groove reading motif; other site 557723001872 helix-hairpin-helix signature motif; other site 557723001873 substrate binding pocket [chemical binding]; other site 557723001874 active site 557723001875 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 557723001876 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 557723001877 Bacterial SH3 domain homologues; Region: SH3b; smart00287 557723001878 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557723001879 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 557723001880 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 557723001881 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 557723001882 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 557723001883 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 557723001884 dimer interface [polypeptide binding]; other site 557723001885 motif 1; other site 557723001886 active site 557723001887 motif 2; other site 557723001888 motif 3; other site 557723001889 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 557723001890 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 557723001891 putative tRNA-binding site [nucleotide binding]; other site 557723001892 B3/4 domain; Region: B3_4; pfam03483 557723001893 tRNA synthetase B5 domain; Region: B5; smart00874 557723001894 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 557723001895 dimer interface [polypeptide binding]; other site 557723001896 motif 1; other site 557723001897 motif 3; other site 557723001898 motif 2; other site 557723001899 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 557723001900 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 557723001901 IHF dimer interface [polypeptide binding]; other site 557723001902 IHF - DNA interface [nucleotide binding]; other site 557723001903 NlpC/P60 family; Region: NLPC_P60; pfam00877 557723001904 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 557723001905 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 557723001906 Sugar specificity; other site 557723001907 Pyrimidine base specificity; other site 557723001908 ATP-binding site [chemical binding]; other site 557723001909 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557723001910 trimer interface [polypeptide binding]; other site 557723001911 active site 557723001912 amidophosphoribosyltransferase; Provisional; Region: PRK09246 557723001913 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 557723001914 active site 557723001915 tetramer interface [polypeptide binding]; other site 557723001916 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723001917 active site 557723001918 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 557723001919 Colicin V production protein; Region: Colicin_V; cl00567 557723001920 L-aspartate oxidase; Region: nadB; TIGR00551 557723001921 L-aspartate oxidase; Provisional; Region: PRK06175 557723001922 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 557723001923 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 557723001924 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 557723001925 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 557723001926 homotrimer interaction site [polypeptide binding]; other site 557723001927 putative active site [active] 557723001928 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 557723001929 Nucleoid-associated protein [General function prediction only]; Region: COG3081 557723001930 nucleoid-associated protein NdpA; Validated; Region: PRK00378 557723001931 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 557723001932 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 557723001933 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 557723001934 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 557723001935 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 557723001936 putative active site [active] 557723001937 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 557723001938 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557723001939 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 557723001940 probable active site [active] 557723001941 hypothetical protein; Provisional; Region: PRK05114 557723001942 hypothetical protein; Validated; Region: PRK01777 557723001943 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 557723001944 putative coenzyme Q binding site [chemical binding]; other site 557723001945 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 557723001946 homotrimer interaction site [polypeptide binding]; other site 557723001947 zinc binding site [ion binding]; other site 557723001948 CDP-binding sites; other site 557723001949 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 557723001950 substrate binding site; other site 557723001951 dimer interface; other site 557723001952 Septum formation initiator; Region: DivIC; cl17659 557723001953 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 557723001954 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 557723001955 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 557723001956 active site 557723001957 substrate-binding site [chemical binding]; other site 557723001958 metal-binding site [ion binding] 557723001959 ATP binding site [chemical binding]; other site 557723001960 Uncharacterized conserved protein [Function unknown]; Region: COG3025 557723001961 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 557723001962 putative active site [active] 557723001963 putative metal binding residues [ion binding]; other site 557723001964 signature motif; other site 557723001965 putative triphosphate binding site [ion binding]; other site 557723001966 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 557723001967 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 557723001968 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 557723001969 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 557723001970 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557723001971 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 557723001972 DNA binding residues [nucleotide binding] 557723001973 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 557723001974 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557723001975 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 557723001976 S-adenosylmethionine binding site [chemical binding]; other site 557723001977 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557723001978 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723001979 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723001980 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 557723001981 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 557723001982 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 557723001983 ATP binding site [chemical binding]; other site 557723001984 putative Mg++ binding site [ion binding]; other site 557723001985 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 557723001986 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 557723001987 putative active site [active] 557723001988 catalytic triad [active] 557723001989 putative dimer interface [polypeptide binding]; other site 557723001990 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 557723001991 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 557723001992 Transporter associated domain; Region: CorC_HlyC; smart01091 557723001993 hypothetical protein; Provisional; Region: PRK01904 557723001994 hypothetical protein; Provisional; Region: PRK03641 557723001995 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 557723001996 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 557723001997 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 557723001998 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 557723001999 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 557723002000 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 557723002001 HD domain; Region: HD_4; pfam13328 557723002002 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557723002003 synthetase active site [active] 557723002004 NTP binding site [chemical binding]; other site 557723002005 metal binding site [ion binding]; metal-binding site 557723002006 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 557723002007 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557723002008 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 557723002009 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 557723002010 tRNA; other site 557723002011 putative tRNA binding site [nucleotide binding]; other site 557723002012 putative NADP binding site [chemical binding]; other site 557723002013 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 557723002014 GTP-binding protein Der; Reviewed; Region: PRK00093 557723002015 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 557723002016 G1 box; other site 557723002017 GTP/Mg2+ binding site [chemical binding]; other site 557723002018 Switch I region; other site 557723002019 G2 box; other site 557723002020 Switch II region; other site 557723002021 G3 box; other site 557723002022 G4 box; other site 557723002023 G5 box; other site 557723002024 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 557723002025 G1 box; other site 557723002026 GTP/Mg2+ binding site [chemical binding]; other site 557723002027 Switch I region; other site 557723002028 G2 box; other site 557723002029 G3 box; other site 557723002030 Switch II region; other site 557723002031 G4 box; other site 557723002032 G5 box; other site 557723002033 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 557723002034 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 557723002035 putative ribose interaction site [chemical binding]; other site 557723002036 putative ADP binding site [chemical binding]; other site 557723002037 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 557723002038 active site 557723002039 nucleotide binding site [chemical binding]; other site 557723002040 HIGH motif; other site 557723002041 KMSKS motif; other site 557723002042 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 557723002043 SurA N-terminal domain; Region: SurA_N; pfam09312 557723002044 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557723002045 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 557723002046 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 557723002047 S-adenosylmethionine binding site [chemical binding]; other site 557723002048 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 557723002049 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 557723002050 hinge; other site 557723002051 active site 557723002052 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 557723002053 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 557723002054 anti sigma factor interaction site; other site 557723002055 regulatory phosphorylation site [posttranslational modification]; other site 557723002056 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 557723002057 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 557723002058 mce related protein; Region: MCE; pfam02470 557723002059 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 557723002060 conserved hypothetical integral membrane protein; Region: TIGR00056 557723002061 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 557723002062 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 557723002063 Walker A/P-loop; other site 557723002064 ATP binding site [chemical binding]; other site 557723002065 Q-loop/lid; other site 557723002066 ABC transporter signature motif; other site 557723002067 Walker B; other site 557723002068 D-loop; other site 557723002069 H-loop/switch region; other site 557723002070 outer membrane lipoprotein; Provisional; Region: PRK11023 557723002071 BON domain; Region: BON; pfam04972 557723002072 bacterial OsmY and nodulation domain; Region: BON; smart00749 557723002073 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 557723002074 dimer interface [polypeptide binding]; other site 557723002075 active site 557723002076 hypothetical protein; Reviewed; Region: PRK12497 557723002077 LppC putative lipoprotein; Region: LppC; pfam04348 557723002078 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 557723002079 putative ligand binding site [chemical binding]; other site 557723002080 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 557723002081 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 557723002082 putative SAM binding site [chemical binding]; other site 557723002083 putative homodimer interface [polypeptide binding]; other site 557723002084 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 557723002085 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 557723002086 dimerization interface [polypeptide binding]; other site 557723002087 DPS ferroxidase diiron center [ion binding]; other site 557723002088 ion pore; other site 557723002089 Uncharacterized conserved protein [Function unknown]; Region: COG1801 557723002090 Autotransporter beta-domain; Region: Autotransporter; smart00869 557723002091 adenylosuccinate lyase; Provisional; Region: PRK09285 557723002092 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 557723002093 tetramer interface [polypeptide binding]; other site 557723002094 active site 557723002095 glycerate dehydrogenase; Provisional; Region: PRK06932 557723002096 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 557723002097 putative ligand binding site [chemical binding]; other site 557723002098 putative NAD binding site [chemical binding]; other site 557723002099 catalytic site [active] 557723002100 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 557723002101 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 557723002102 E-class dimer interface [polypeptide binding]; other site 557723002103 P-class dimer interface [polypeptide binding]; other site 557723002104 active site 557723002105 Cu2+ binding site [ion binding]; other site 557723002106 Zn2+ binding site [ion binding]; other site 557723002107 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 557723002108 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557723002109 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 557723002110 Predicted membrane protein [Function unknown]; Region: COG2364 557723002111 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 557723002112 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 557723002113 GTP-binding protein YchF; Reviewed; Region: PRK09601 557723002114 YchF GTPase; Region: YchF; cd01900 557723002115 G1 box; other site 557723002116 GTP/Mg2+ binding site [chemical binding]; other site 557723002117 Switch I region; other site 557723002118 G2 box; other site 557723002119 Switch II region; other site 557723002120 G3 box; other site 557723002121 G4 box; other site 557723002122 G5 box; other site 557723002123 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 557723002124 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 557723002125 putative active site [active] 557723002126 catalytic residue [active] 557723002127 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 557723002128 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 557723002129 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 557723002130 Protein of unknown function (DUF497); Region: DUF497; pfam04365 557723002131 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 557723002132 Terminase small subunit; Region: Terminase_2; cl01513 557723002133 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 557723002134 integrase; Provisional; Region: PRK09692 557723002135 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 557723002136 active site 557723002137 Int/Topo IB signature motif; other site 557723002138 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 557723002139 UbiA prenyltransferase family; Region: UbiA; pfam01040 557723002140 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 557723002141 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 557723002142 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557723002143 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 557723002144 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557723002145 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 557723002146 Tetratricopeptide repeat; Region: TPR_9; pfam13371 557723002147 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 557723002148 binding surface 557723002149 TPR motif; other site 557723002150 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 557723002151 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 557723002152 R.HinP1I restriction endonuclease; Region: R-HINP1I; pfam11463 557723002153 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 557723002154 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557723002155 cofactor binding site; other site 557723002156 DNA binding site [nucleotide binding] 557723002157 substrate interaction site [chemical binding]; other site 557723002158 peptide chain release factor 1; Validated; Region: prfA; PRK00591 557723002159 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557723002160 RF-1 domain; Region: RF-1; pfam00472 557723002161 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 557723002162 IHF dimer interface [polypeptide binding]; other site 557723002163 IHF - DNA interface [nucleotide binding]; other site 557723002164 Protein of unknown function (DUF416); Region: DUF416; cl01166 557723002165 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 557723002166 substrate binding site [chemical binding]; other site 557723002167 active site 557723002168 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 557723002169 active site 557723002170 phosphate binding residues; other site 557723002171 catalytic residues [active] 557723002172 argininosuccinate lyase; Provisional; Region: PRK04833 557723002173 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 557723002174 active sites [active] 557723002175 tetramer interface [polypeptide binding]; other site 557723002176 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 557723002177 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 557723002178 Walker A/P-loop; other site 557723002179 ATP binding site [chemical binding]; other site 557723002180 Q-loop/lid; other site 557723002181 ABC transporter signature motif; other site 557723002182 Walker B; other site 557723002183 D-loop; other site 557723002184 H-loop/switch region; other site 557723002185 TOBE domain; Region: TOBE_2; pfam08402 557723002186 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557723002187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002188 dimer interface [polypeptide binding]; other site 557723002189 conserved gate region; other site 557723002190 putative PBP binding loops; other site 557723002191 ABC-ATPase subunit interface; other site 557723002192 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 557723002193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002194 dimer interface [polypeptide binding]; other site 557723002195 conserved gate region; other site 557723002196 putative PBP binding loops; other site 557723002197 ABC-ATPase subunit interface; other site 557723002198 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 557723002199 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 557723002200 dimer interface [polypeptide binding]; other site 557723002201 motif 1; other site 557723002202 active site 557723002203 motif 2; other site 557723002204 motif 3; other site 557723002205 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 557723002206 anticodon binding site; other site 557723002207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 557723002208 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 557723002209 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 557723002210 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 557723002211 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 557723002212 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 557723002213 putative substrate translocation pore; other site 557723002214 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 557723002215 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 557723002216 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 557723002217 amidase catalytic site [active] 557723002218 Zn binding residues [ion binding]; other site 557723002219 substrate binding site [chemical binding]; other site 557723002220 Predicted membrane protein [Function unknown]; Region: COG2431 557723002221 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 557723002222 active site 557723002223 DNA polymerase IV; Validated; Region: PRK02406 557723002224 DNA binding site [nucleotide binding] 557723002225 heat shock protein HtpX; Provisional; Region: PRK05457 557723002226 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 557723002227 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 557723002228 GIY-YIG motif/motif A; other site 557723002229 active site 557723002230 catalytic site [active] 557723002231 putative DNA binding site [nucleotide binding]; other site 557723002232 metal binding site [ion binding]; metal-binding site 557723002233 UvrB/uvrC motif; Region: UVR; pfam02151 557723002234 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 557723002235 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 557723002236 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 557723002237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002238 dimer interface [polypeptide binding]; other site 557723002239 conserved gate region; other site 557723002240 putative PBP binding loops; other site 557723002241 ABC-ATPase subunit interface; other site 557723002242 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 557723002243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723002244 Walker A/P-loop; other site 557723002245 ATP binding site [chemical binding]; other site 557723002246 Q-loop/lid; other site 557723002247 ABC transporter signature motif; other site 557723002248 Walker B; other site 557723002249 D-loop; other site 557723002250 H-loop/switch region; other site 557723002251 TOBE domain; Region: TOBE; pfam03459 557723002252 superoxide dismutase; Provisional; Region: PRK10925 557723002253 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 557723002254 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 557723002255 Helix-turn-helix domain; Region: HTH_17; cl17695 557723002256 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 557723002257 GIY-YIG motif/motif A; other site 557723002258 putative active site [active] 557723002259 putative metal binding site [ion binding]; other site 557723002260 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 557723002261 non-specific DNA binding site [nucleotide binding]; other site 557723002262 salt bridge; other site 557723002263 sequence-specific DNA binding site [nucleotide binding]; other site 557723002264 integrase; Provisional; Region: PRK09692 557723002265 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 557723002266 active site 557723002267 Int/Topo IB signature motif; other site 557723002268 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723002269 active site 557723002270 transcription termination factor Rho; Provisional; Region: rho; PRK09376 557723002271 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 557723002272 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 557723002273 RNA binding site [nucleotide binding]; other site 557723002274 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 557723002275 multimer interface [polypeptide binding]; other site 557723002276 Walker A motif; other site 557723002277 ATP binding site [chemical binding]; other site 557723002278 Walker B motif; other site 557723002279 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 557723002280 RNA binding surface [nucleotide binding]; other site 557723002281 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 557723002282 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 557723002283 dimerization interface [polypeptide binding]; other site 557723002284 domain crossover interface; other site 557723002285 redox-dependent activation switch; other site 557723002286 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 557723002287 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 557723002288 active site 557723002289 catalytic site [active] 557723002290 substrate binding site [chemical binding]; other site 557723002291 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557723002292 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 557723002293 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 557723002294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 557723002295 Predicted membrane protein [Function unknown]; Region: COG3759 557723002296 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 557723002297 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 557723002298 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 557723002299 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 557723002300 putative active site [active] 557723002301 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 557723002302 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 557723002303 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 557723002304 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 557723002305 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 557723002306 active site 557723002307 This domain is found in peptide chain release factors; Region: PCRF; smart00937 557723002308 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 557723002309 RF-1 domain; Region: RF-1; pfam00472 557723002310 Methyltransferase domain; Region: Methyltransf_23; pfam13489 557723002311 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 557723002312 S-adenosylmethionine binding site [chemical binding]; other site 557723002313 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 557723002314 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557723002315 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 557723002316 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 557723002317 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 557723002318 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557723002319 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 557723002320 putative active site [active] 557723002321 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557723002322 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557723002323 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 557723002324 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 557723002325 active site 557723002326 substrate binding site [chemical binding]; other site 557723002327 metal binding site [ion binding]; metal-binding site 557723002328 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 557723002329 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 557723002330 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 557723002331 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 557723002332 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 557723002333 substrate binding pocket [chemical binding]; other site 557723002334 chain length determination region; other site 557723002335 substrate-Mg2+ binding site; other site 557723002336 catalytic residues [active] 557723002337 aspartate-rich region 1; other site 557723002338 active site lid residues [active] 557723002339 aspartate-rich region 2; other site 557723002340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 557723002341 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 557723002342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 557723002343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 557723002344 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 557723002345 NAD(P) binding site [chemical binding]; other site 557723002346 homotetramer interface [polypeptide binding]; other site 557723002347 homodimer interface [polypeptide binding]; other site 557723002348 active site 557723002349 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 557723002350 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 557723002351 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 557723002352 DNA binding site [nucleotide binding] 557723002353 catalytic residue [active] 557723002354 H2TH interface [polypeptide binding]; other site 557723002355 putative catalytic residues [active] 557723002356 turnover-facilitating residue; other site 557723002357 intercalation triad [nucleotide binding]; other site 557723002358 8OG recognition residue [nucleotide binding]; other site 557723002359 putative reading head residues; other site 557723002360 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 557723002361 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557723002362 Mor transcription activator family; Region: Mor; pfam08765 557723002363 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 557723002364 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 557723002365 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 557723002366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723002367 Walker A/P-loop; other site 557723002368 ATP binding site [chemical binding]; other site 557723002369 Integrase core domain; Region: rve; pfam00665 557723002370 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 557723002371 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 557723002372 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 557723002373 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 557723002374 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 557723002375 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 557723002376 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 557723002377 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 557723002378 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 557723002379 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 557723002380 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 557723002381 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 557723002382 Terminase-like family; Region: Terminase_6; pfam03237 557723002383 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 557723002384 Protein of unknown function (DUF935); Region: DUF935; pfam06074 557723002385 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 557723002386 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 557723002387 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 557723002388 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 557723002389 Gp37 protein; Region: Gp37; pfam09646 557723002390 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 557723002391 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 557723002392 Phage tail tube protein FII; Region: Phage_tube; cl01390 557723002393 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 557723002394 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 557723002395 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 557723002396 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 557723002397 Phage-related protein [Function unknown]; Region: COG5412 557723002398 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 557723002399 Phage Tail Protein X; Region: Phage_tail_X; cl02088 557723002400 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 557723002401 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 557723002402 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 557723002403 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 557723002404 Baseplate J-like protein; Region: Baseplate_J; cl01294 557723002405 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 557723002406 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 557723002407 Tail fiber protein gp37 C terminal; Region: gp37_C; pfam12604 557723002408 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 557723002409 Phage-related protein, tail component [Function unknown]; Region: COG4733 557723002410 Putative phage tail protein; Region: Phage-tail_3; pfam13550 557723002411 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 557723002412 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 557723002413 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 557723002414 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 557723002415 metal binding site [ion binding]; metal-binding site 557723002416 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 557723002417 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 557723002418 domain interface [polypeptide binding]; other site 557723002419 putative active site [active] 557723002420 catalytic site [active] 557723002421 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 557723002422 domain interface [polypeptide binding]; other site 557723002423 putative active site [active] 557723002424 catalytic site [active] 557723002425 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 557723002426 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557723002427 active site 557723002428 HIGH motif; other site 557723002429 nucleotide binding site [chemical binding]; other site 557723002430 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 557723002431 active site 557723002432 KMSKS motif; other site 557723002433 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 557723002434 tRNA binding surface [nucleotide binding]; other site 557723002435 anticodon binding site; other site 557723002436 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 557723002437 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 557723002438 Zeta toxin; Region: Zeta_toxin; pfam06414 557723002439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 557723002440 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 557723002441 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 557723002442 active site 557723002443 Riboflavin kinase; Region: Flavokinase; smart00904 557723002444 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 557723002445 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 557723002446 dimerization interface [polypeptide binding]; other site 557723002447 putative ATP binding site [chemical binding]; other site 557723002448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723002449 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723002450 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723002451 Outer membrane lipoprotein; Region: YfiO; pfam13525 557723002452 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 557723002453 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 557723002454 RNA binding surface [nucleotide binding]; other site 557723002455 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557723002456 active site 557723002457 BolA-like protein; Region: BolA; cl00386 557723002458 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 557723002459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 557723002460 RNA methyltransferase, RsmE family; Region: TIGR00046 557723002461 hypothetical protein; Validated; Region: PRK00228 557723002462 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 557723002463 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 557723002464 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 557723002465 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 557723002466 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 557723002467 TRAM domain; Region: TRAM; pfam01938 557723002468 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 557723002469 S-adenosylmethionine binding site [chemical binding]; other site 557723002470 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557723002471 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557723002472 peptide binding site [polypeptide binding]; other site 557723002473 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557723002474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002475 dimer interface [polypeptide binding]; other site 557723002476 conserved gate region; other site 557723002477 putative PBP binding loops; other site 557723002478 ABC-ATPase subunit interface; other site 557723002479 dipeptide transporter; Provisional; Region: PRK10913 557723002480 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 557723002481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002482 dimer interface [polypeptide binding]; other site 557723002483 conserved gate region; other site 557723002484 putative PBP binding loops; other site 557723002485 ABC-ATPase subunit interface; other site 557723002486 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 557723002487 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723002488 Walker A/P-loop; other site 557723002489 ATP binding site [chemical binding]; other site 557723002490 Q-loop/lid; other site 557723002491 ABC transporter signature motif; other site 557723002492 Walker B; other site 557723002493 D-loop; other site 557723002494 H-loop/switch region; other site 557723002495 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 557723002496 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 557723002497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723002498 Walker A/P-loop; other site 557723002499 ATP binding site [chemical binding]; other site 557723002500 Q-loop/lid; other site 557723002501 ABC transporter signature motif; other site 557723002502 Walker B; other site 557723002503 D-loop; other site 557723002504 H-loop/switch region; other site 557723002505 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 557723002506 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 557723002507 active site 557723002508 putative DNA-binding cleft [nucleotide binding]; other site 557723002509 dimer interface [polypeptide binding]; other site 557723002510 hypothetical protein; Validated; Region: PRK00110 557723002511 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 557723002512 nudix motif; other site 557723002513 Outer membrane efflux protein; Region: OEP; pfam02321 557723002514 dihydropteroate synthase; Region: DHPS; TIGR01496 557723002515 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 557723002516 substrate binding pocket [chemical binding]; other site 557723002517 dimer interface [polypeptide binding]; other site 557723002518 inhibitor binding site; inhibition site 557723002519 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 557723002520 ArsC family; Region: ArsC; pfam03960 557723002521 putative catalytic residues [active] 557723002522 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 557723002523 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 557723002524 CoA-binding site [chemical binding]; other site 557723002525 ATP-binding [chemical binding]; other site 557723002526 Domain of unknown function (DUF329); Region: DUF329; pfam03884 557723002527 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 557723002528 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 557723002529 Lipopolysaccharide-assembly; Region: LptE; cl01125 557723002530 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 557723002531 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 557723002532 HIGH motif; other site 557723002533 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557723002534 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557723002535 active site 557723002536 KMSKS motif; other site 557723002537 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 557723002538 tRNA binding surface [nucleotide binding]; other site 557723002539 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557723002540 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 557723002541 sequence-specific DNA binding site [nucleotide binding]; other site 557723002542 salt bridge; other site 557723002543 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 557723002544 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 557723002545 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 557723002546 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 557723002547 active site 557723002548 dimer interface [polypeptide binding]; other site 557723002549 motif 1; other site 557723002550 motif 2; other site 557723002551 motif 3; other site 557723002552 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 557723002553 anticodon binding site; other site 557723002554 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 557723002555 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557723002556 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 557723002557 FeS/SAM binding site; other site 557723002558 TRAM domain; Region: TRAM; pfam01938 557723002559 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 557723002560 HPr interaction site; other site 557723002561 glycerol kinase (GK) interaction site [polypeptide binding]; other site 557723002562 active site 557723002563 phosphorylation site [posttranslational modification] 557723002564 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 557723002565 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 557723002566 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 557723002567 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 557723002568 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 557723002569 dimerization domain swap beta strand [polypeptide binding]; other site 557723002570 regulatory protein interface [polypeptide binding]; other site 557723002571 active site 557723002572 regulatory phosphorylation site [posttranslational modification]; other site 557723002573 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 557723002574 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 557723002575 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557723002576 C2 domain; Region: C2; cl14603 557723002577 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 557723002578 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 557723002579 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 557723002580 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557723002581 Protein export membrane protein; Region: SecD_SecF; pfam02355 557723002582 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 557723002583 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 557723002584 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 557723002585 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 557723002586 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 557723002587 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 557723002588 argininosuccinate synthase; Validated; Region: PRK05370 557723002589 argininosuccinate synthase; Provisional; Region: PRK13820 557723002590 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 557723002591 catalytic core [active] 557723002592 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 557723002593 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 557723002594 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 557723002595 Ligand binding site; other site 557723002596 oligomer interface; other site 557723002597 Protein of unknown function, DUF462; Region: DUF462; pfam04315 557723002598 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 557723002599 putative FMN binding site [chemical binding]; other site 557723002600 transketolase; Reviewed; Region: PRK12753 557723002601 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 557723002602 TPP-binding site [chemical binding]; other site 557723002603 dimer interface [polypeptide binding]; other site 557723002604 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 557723002605 PYR/PP interface [polypeptide binding]; other site 557723002606 dimer interface [polypeptide binding]; other site 557723002607 TPP binding site [chemical binding]; other site 557723002608 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 557723002609 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557723002610 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 557723002611 putative active site [active] 557723002612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 557723002613 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 557723002614 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 557723002615 NAD binding site [chemical binding]; other site 557723002616 substrate binding site [chemical binding]; other site 557723002617 homodimer interface [polypeptide binding]; other site 557723002618 active site 557723002619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557723002620 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 557723002621 NAD(P) binding site [chemical binding]; other site 557723002622 active site 557723002623 arginine repressor; Provisional; Region: PRK05066 557723002624 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 557723002625 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 557723002626 malate dehydrogenase; Provisional; Region: PRK05086 557723002627 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 557723002628 NAD binding site [chemical binding]; other site 557723002629 dimerization interface [polypeptide binding]; other site 557723002630 Substrate binding site [chemical binding]; other site 557723002631 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 557723002632 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 557723002633 thioredoxin reductase; Provisional; Region: PRK10262 557723002634 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557723002635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557723002636 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557723002637 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 557723002638 putative metal binding site; other site 557723002639 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 557723002640 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 557723002641 adenylate cyclase; Provisional; Region: cyaA; PRK09450 557723002642 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 557723002643 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 557723002644 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 557723002645 TrkA-N domain; Region: TrkA_N; pfam02254 557723002646 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 557723002647 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 557723002648 Walker A motif; other site 557723002649 ATP binding site [chemical binding]; other site 557723002650 Walker B motif; other site 557723002651 arginine finger; other site 557723002652 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 557723002653 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 557723002654 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 557723002655 peptide binding site [polypeptide binding]; other site 557723002656 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 557723002657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002658 dimer interface [polypeptide binding]; other site 557723002659 conserved gate region; other site 557723002660 putative PBP binding loops; other site 557723002661 ABC-ATPase subunit interface; other site 557723002662 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 557723002663 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 557723002664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002665 dimer interface [polypeptide binding]; other site 557723002666 conserved gate region; other site 557723002667 ABC-ATPase subunit interface; other site 557723002668 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 557723002669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723002670 Walker A/P-loop; other site 557723002671 ATP binding site [chemical binding]; other site 557723002672 Q-loop/lid; other site 557723002673 ABC transporter signature motif; other site 557723002674 Walker B; other site 557723002675 D-loop; other site 557723002676 H-loop/switch region; other site 557723002677 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723002678 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723002679 Walker A/P-loop; other site 557723002680 ATP binding site [chemical binding]; other site 557723002681 Q-loop/lid; other site 557723002682 ABC transporter signature motif; other site 557723002683 Walker B; other site 557723002684 D-loop; other site 557723002685 H-loop/switch region; other site 557723002686 ABC transporter ATPase component; Reviewed; Region: PRK11147 557723002687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723002688 Walker A/P-loop; other site 557723002689 ATP binding site [chemical binding]; other site 557723002690 ABC transporter signature motif; other site 557723002691 Walker B; other site 557723002692 D-loop; other site 557723002693 H-loop/switch region; other site 557723002694 ABC transporter; Region: ABC_tran_2; pfam12848 557723002695 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557723002696 transcriptional regulator MalT; Provisional; Region: PRK04841 557723002697 AAA ATPase domain; Region: AAA_16; pfam13191 557723002698 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 557723002699 binding surface 557723002700 TPR motif; other site 557723002701 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 557723002702 DNA binding residues [nucleotide binding] 557723002703 dimerization interface [polypeptide binding]; other site 557723002704 dsDNA-mimic protein; Reviewed; Region: PRK05094 557723002705 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 557723002706 HemY protein N-terminus; Region: HemY_N; pfam07219 557723002707 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 557723002708 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 557723002709 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 557723002710 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 557723002711 active site 557723002712 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 557723002713 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 557723002714 domain interfaces; other site 557723002715 active site 557723002716 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557723002717 amino acid carrier protein; Region: agcS; TIGR00835 557723002718 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 557723002719 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 557723002720 active site turn [active] 557723002721 phosphorylation site [posttranslational modification] 557723002722 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 557723002723 protease3; Provisional; Region: PRK15101 557723002724 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 557723002725 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557723002726 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 557723002727 putative lysogenization regulator; Reviewed; Region: PRK00218 557723002728 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 557723002729 Found in ATP-dependent protease La (LON); Region: LON; smart00464 557723002730 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 557723002731 Walker A motif; other site 557723002732 ATP binding site [chemical binding]; other site 557723002733 Walker B motif; other site 557723002734 arginine finger; other site 557723002735 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557723002736 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 557723002737 beta-hexosaminidase; Provisional; Region: PRK05337 557723002738 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 557723002739 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 557723002740 DEAD/DEAH box helicase; Region: DEAD; pfam00270 557723002741 ATP binding site [chemical binding]; other site 557723002742 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 557723002743 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723002744 active site 557723002745 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 557723002746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723002747 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 557723002748 putative dimerization interface [polypeptide binding]; other site 557723002749 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557723002750 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 557723002751 putative active site [active] 557723002752 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557723002753 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 557723002754 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 557723002755 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 557723002756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557723002757 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 557723002758 putative ADP-binding pocket [chemical binding]; other site 557723002759 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 557723002760 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 557723002761 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 557723002762 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 557723002763 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 557723002764 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557723002765 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557723002766 poxB regulator PoxA; Provisional; Region: PRK09350 557723002767 motif 1; other site 557723002768 dimer interface [polypeptide binding]; other site 557723002769 active site 557723002770 motif 2; other site 557723002771 motif 3; other site 557723002772 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557723002773 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 557723002774 active site 557723002775 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 557723002776 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 557723002777 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557723002778 putative active site [active] 557723002779 putative metal binding site [ion binding]; other site 557723002780 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 557723002781 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 557723002782 active site 557723002783 HD domain; Region: HD_4; pfam13328 557723002784 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 557723002785 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 557723002786 synthetase active site [active] 557723002787 NTP binding site [chemical binding]; other site 557723002788 metal binding site [ion binding]; metal-binding site 557723002789 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 557723002790 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 557723002791 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 557723002792 transaldolase-like protein; Provisional; Region: PTZ00411 557723002793 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 557723002794 active site 557723002795 dimer interface [polypeptide binding]; other site 557723002796 catalytic residue [active] 557723002797 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 557723002798 muropeptide transporter; Reviewed; Region: ampG; PRK11902 557723002799 putative substrate translocation pore; other site 557723002800 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 557723002801 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 557723002802 NAD binding site [chemical binding]; other site 557723002803 homodimer interface [polypeptide binding]; other site 557723002804 active site 557723002805 substrate binding site [chemical binding]; other site 557723002806 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 557723002807 pseudouridine synthase; Region: TIGR00093 557723002808 active site 557723002809 hypothetical protein; Validated; Region: PRK00153 557723002810 recombination protein RecR; Reviewed; Region: recR; PRK00076 557723002811 RecR protein; Region: RecR; pfam02132 557723002812 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 557723002813 putative active site [active] 557723002814 putative metal-binding site [ion binding]; other site 557723002815 tetramer interface [polypeptide binding]; other site 557723002816 CTP synthetase; Validated; Region: pyrG; PRK05380 557723002817 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 557723002818 Catalytic site [active] 557723002819 active site 557723002820 UTP binding site [chemical binding]; other site 557723002821 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 557723002822 active site 557723002823 putative oxyanion hole; other site 557723002824 catalytic triad [active] 557723002825 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 557723002826 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 557723002827 ligand binding site [chemical binding]; other site 557723002828 NAD binding site [chemical binding]; other site 557723002829 tetramer interface [polypeptide binding]; other site 557723002830 catalytic site [active] 557723002831 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 557723002832 L-serine binding site [chemical binding]; other site 557723002833 ACT domain interface; other site 557723002834 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 557723002835 tetramer (dimer of dimers) interface [polypeptide binding]; other site 557723002836 active site 557723002837 dimer interface [polypeptide binding]; other site 557723002838 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 557723002839 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 557723002840 active site 557723002841 substrate binding site [chemical binding]; other site 557723002842 metal binding site [ion binding]; metal-binding site 557723002843 threonine dehydratase; Reviewed; Region: PRK09224 557723002844 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 557723002845 tetramer interface [polypeptide binding]; other site 557723002846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723002847 catalytic residue [active] 557723002848 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 557723002849 putative Ile/Val binding site [chemical binding]; other site 557723002850 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 557723002851 putative Ile/Val binding site [chemical binding]; other site 557723002852 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 557723002853 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557723002854 Protein of unknown function (DUF541); Region: SIMPL; cl01077 557723002855 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 557723002856 homodimer interaction site [polypeptide binding]; other site 557723002857 cofactor binding site; other site 557723002858 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 557723002859 UbiA prenyltransferase family; Region: UbiA; pfam01040 557723002860 Uncharacterized conserved protein [Function unknown]; Region: COG2835 557723002861 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 557723002862 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 557723002863 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 557723002864 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 557723002865 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 557723002866 glycerol kinase; Provisional; Region: glpK; PRK00047 557723002867 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 557723002868 N- and C-terminal domain interface [polypeptide binding]; other site 557723002869 active site 557723002870 MgATP binding site [chemical binding]; other site 557723002871 catalytic site [active] 557723002872 metal binding site [ion binding]; metal-binding site 557723002873 glycerol binding site [chemical binding]; other site 557723002874 homotetramer interface [polypeptide binding]; other site 557723002875 homodimer interface [polypeptide binding]; other site 557723002876 FBP binding site [chemical binding]; other site 557723002877 protein IIAGlc interface [polypeptide binding]; other site 557723002878 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 557723002879 amphipathic channel; other site 557723002880 Asn-Pro-Ala signature motifs; other site 557723002881 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 557723002882 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 557723002883 putative common antigen polymerase; Provisional; Region: PRK02975 557723002884 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 557723002885 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 557723002886 Transglycosylase; Region: Transgly; pfam00912 557723002887 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557723002888 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557723002889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002890 dimer interface [polypeptide binding]; other site 557723002891 conserved gate region; other site 557723002892 putative PBP binding loops; other site 557723002893 ABC-ATPase subunit interface; other site 557723002894 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557723002895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002896 dimer interface [polypeptide binding]; other site 557723002897 conserved gate region; other site 557723002898 putative PBP binding loops; other site 557723002899 ABC-ATPase subunit interface; other site 557723002900 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 557723002901 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 557723002902 substrate binding pocket [chemical binding]; other site 557723002903 membrane-bound complex binding site; other site 557723002904 hinge residues; other site 557723002905 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 557723002906 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723002907 Walker A/P-loop; other site 557723002908 ATP binding site [chemical binding]; other site 557723002909 Q-loop/lid; other site 557723002910 ABC transporter signature motif; other site 557723002911 Walker B; other site 557723002912 D-loop; other site 557723002913 H-loop/switch region; other site 557723002914 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 557723002915 Part of AAA domain; Region: AAA_19; pfam13245 557723002916 Family description; Region: UvrD_C_2; pfam13538 557723002917 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 557723002918 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 557723002919 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 557723002920 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 557723002921 primosomal replication protein N; Provisional; Region: PRK02801 557723002922 generic binding surface II; other site 557723002923 generic binding surface I; other site 557723002924 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 557723002925 metabolite-proton symporter; Region: 2A0106; TIGR00883 557723002926 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 557723002927 putative substrate translocation pore; other site 557723002928 thiamine kinase; Region: ycfN_thiK; TIGR02721 557723002929 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 557723002930 active site 557723002931 substrate binding site [chemical binding]; other site 557723002932 ATP binding site [chemical binding]; other site 557723002933 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 557723002934 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 557723002935 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 557723002936 putative dimer interface [polypeptide binding]; other site 557723002937 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 557723002938 nucleotide binding site/active site [active] 557723002939 HIT family signature motif; other site 557723002940 catalytic residue [active] 557723002941 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 557723002942 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557723002943 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 557723002944 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 557723002945 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 557723002946 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 557723002947 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 557723002948 E3 interaction surface; other site 557723002949 lipoyl attachment site [posttranslational modification]; other site 557723002950 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 557723002951 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 557723002952 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 557723002953 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 557723002954 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 557723002955 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 557723002956 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 557723002957 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 557723002958 FAD binding pocket [chemical binding]; other site 557723002959 FAD binding motif [chemical binding]; other site 557723002960 phosphate binding motif [ion binding]; other site 557723002961 beta-alpha-beta structure motif; other site 557723002962 NAD binding pocket [chemical binding]; other site 557723002963 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 557723002964 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557723002965 active site 557723002966 NTP binding site [chemical binding]; other site 557723002967 metal binding triad [ion binding]; metal-binding site 557723002968 antibiotic binding site [chemical binding]; other site 557723002969 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 557723002970 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002971 dimer interface [polypeptide binding]; other site 557723002972 conserved gate region; other site 557723002973 putative PBP binding loops; other site 557723002974 ABC-ATPase subunit interface; other site 557723002975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723002976 dimer interface [polypeptide binding]; other site 557723002977 conserved gate region; other site 557723002978 putative PBP binding loops; other site 557723002979 ABC-ATPase subunit interface; other site 557723002980 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 557723002981 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 557723002982 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 557723002983 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 557723002984 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 557723002985 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 557723002986 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 557723002987 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 557723002988 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 557723002989 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 557723002990 rRNA binding site [nucleotide binding]; other site 557723002991 predicted 30S ribosome binding site; other site 557723002992 Predicted GTPases [General function prediction only]; Region: COG1162 557723002993 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 557723002994 RNA binding site [nucleotide binding]; other site 557723002995 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 557723002996 GTPase/Zn-binding domain interface [polypeptide binding]; other site 557723002997 GTP/Mg2+ binding site [chemical binding]; other site 557723002998 G4 box; other site 557723002999 G5 box; other site 557723003000 G1 box; other site 557723003001 Switch I region; other site 557723003002 G2 box; other site 557723003003 G3 box; other site 557723003004 Switch II region; other site 557723003005 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 557723003006 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 557723003007 metal binding site [ion binding]; metal-binding site 557723003008 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 557723003009 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 557723003010 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557723003011 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 557723003012 ABC-ATPase subunit interface; other site 557723003013 dimer interface [polypeptide binding]; other site 557723003014 putative PBP binding regions; other site 557723003015 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 557723003016 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 557723003017 ABC-ATPase subunit interface; other site 557723003018 dimer interface [polypeptide binding]; other site 557723003019 putative PBP binding regions; other site 557723003020 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 557723003021 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557723003022 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 557723003023 non-specific DNA binding site [nucleotide binding]; other site 557723003024 salt bridge; other site 557723003025 sequence-specific DNA binding site [nucleotide binding]; other site 557723003026 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 557723003027 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 557723003028 substrate binding [chemical binding]; other site 557723003029 active site 557723003030 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 557723003031 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 557723003032 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 557723003033 PhnA protein; Region: PhnA; pfam03831 557723003034 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 557723003035 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 557723003036 active site 557723003037 substrate binding site [chemical binding]; other site 557723003038 cosubstrate binding site; other site 557723003039 catalytic site [active] 557723003040 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 557723003041 Aspartase; Region: Aspartase; cd01357 557723003042 active sites [active] 557723003043 tetramer interface [polypeptide binding]; other site 557723003044 heat shock protein 90; Provisional; Region: PRK05218 557723003045 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 557723003046 ATP binding site [chemical binding]; other site 557723003047 Mg2+ binding site [ion binding]; other site 557723003048 G-X-G motif; other site 557723003049 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 557723003050 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 557723003051 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557723003052 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557723003053 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 557723003054 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723003055 Walker A/P-loop; other site 557723003056 ATP binding site [chemical binding]; other site 557723003057 Q-loop/lid; other site 557723003058 ABC transporter signature motif; other site 557723003059 Walker B; other site 557723003060 D-loop; other site 557723003061 H-loop/switch region; other site 557723003062 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723003063 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557723003064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003065 dimer interface [polypeptide binding]; other site 557723003066 conserved gate region; other site 557723003067 putative PBP binding loops; other site 557723003068 ABC-ATPase subunit interface; other site 557723003069 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 557723003070 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723003071 Walker A/P-loop; other site 557723003072 ATP binding site [chemical binding]; other site 557723003073 Q-loop/lid; other site 557723003074 ABC transporter signature motif; other site 557723003075 Walker B; other site 557723003076 D-loop; other site 557723003077 H-loop/switch region; other site 557723003078 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723003079 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557723003080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003081 dimer interface [polypeptide binding]; other site 557723003082 conserved gate region; other site 557723003083 ABC-ATPase subunit interface; other site 557723003084 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557723003085 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 557723003086 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 557723003087 RNA/DNA hybrid binding site [nucleotide binding]; other site 557723003088 active site 557723003089 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 557723003090 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 557723003091 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 557723003092 putative active site [active] 557723003093 putative substrate binding site [chemical binding]; other site 557723003094 putative cosubstrate binding site; other site 557723003095 catalytic site [active] 557723003096 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 557723003097 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 557723003098 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 557723003099 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 557723003100 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557723003101 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557723003102 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 557723003103 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 557723003104 binding surface 557723003105 TPR motif; other site 557723003106 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 557723003107 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 557723003108 Walker A/P-loop; other site 557723003109 ATP binding site [chemical binding]; other site 557723003110 Q-loop/lid; other site 557723003111 ABC transporter signature motif; other site 557723003112 Walker B; other site 557723003113 D-loop; other site 557723003114 H-loop/switch region; other site 557723003115 TOBE domain; Region: TOBE_2; pfam08402 557723003116 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 557723003117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003118 dimer interface [polypeptide binding]; other site 557723003119 conserved gate region; other site 557723003120 putative PBP binding loops; other site 557723003121 ABC-ATPase subunit interface; other site 557723003122 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003123 dimer interface [polypeptide binding]; other site 557723003124 conserved gate region; other site 557723003125 putative PBP binding loops; other site 557723003126 ABC-ATPase subunit interface; other site 557723003127 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 557723003128 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 557723003129 Haem-binding domain; Region: Haem_bd; pfam14376 557723003130 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 557723003131 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 557723003132 16S/18S rRNA binding site [nucleotide binding]; other site 557723003133 S13e-L30e interaction site [polypeptide binding]; other site 557723003134 25S rRNA binding site [nucleotide binding]; other site 557723003135 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 557723003136 periplasmic folding chaperone; Provisional; Region: PRK10788 557723003137 SurA N-terminal domain; Region: SurA_N_3; pfam13624 557723003138 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 557723003139 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 557723003140 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 557723003141 catalytic motif [active] 557723003142 Zn binding site [ion binding]; other site 557723003143 RibD C-terminal domain; Region: RibD_C; cl17279 557723003144 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 557723003145 Lumazine binding domain; Region: Lum_binding; pfam00677 557723003146 Lumazine binding domain; Region: Lum_binding; pfam00677 557723003147 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 557723003148 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 557723003149 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 557723003150 dimerization interface [polypeptide binding]; other site 557723003151 active site 557723003152 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 557723003153 homopentamer interface [polypeptide binding]; other site 557723003154 active site 557723003155 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 557723003156 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 557723003157 Walker A/P-loop; other site 557723003158 ATP binding site [chemical binding]; other site 557723003159 Q-loop/lid; other site 557723003160 ABC transporter signature motif; other site 557723003161 Walker B; other site 557723003162 D-loop; other site 557723003163 H-loop/switch region; other site 557723003164 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557723003165 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 557723003166 TM-ABC transporter signature motif; other site 557723003167 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 557723003168 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 557723003169 substrate binding pocket [chemical binding]; other site 557723003170 membrane-bound complex binding site; other site 557723003171 hinge residues; other site 557723003172 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557723003173 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557723003174 catalytic residue [active] 557723003175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 557723003176 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 557723003177 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 557723003178 homodimer interface [polypeptide binding]; other site 557723003179 NADP binding site [chemical binding]; other site 557723003180 substrate binding site [chemical binding]; other site 557723003181 integrase; Provisional; Region: int; PHA02601 557723003182 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 557723003183 active site 557723003184 DNA binding site [nucleotide binding] 557723003185 Int/Topo IB signature motif; other site 557723003186 BRO family, N-terminal domain; Region: Bro-N; smart01040 557723003187 ORF6C domain; Region: ORF6C; pfam10552 557723003188 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 557723003189 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 557723003190 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 557723003191 PemK-like protein; Region: PemK; cl00995 557723003192 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 557723003193 RecT family; Region: RecT; cl04285 557723003194 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557723003195 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 557723003196 binding surface 557723003197 TPR motif; other site 557723003198 Protein of unknown function (DUF560); Region: DUF560; pfam04575 557723003199 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 557723003200 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 557723003201 Cell division protein ZapA; Region: ZapA; cl01146 557723003202 hypothetical protein; Reviewed; Region: PRK01736 557723003203 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 557723003204 Class III ribonucleotide reductase; Region: RNR_III; cd01675 557723003205 effector binding site; other site 557723003206 active site 557723003207 Zn binding site [ion binding]; other site 557723003208 glycine loop; other site 557723003209 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 557723003210 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557723003211 Glutamine amidotransferase class-I; Region: GATase; pfam00117 557723003212 glutamine binding [chemical binding]; other site 557723003213 catalytic triad [active] 557723003214 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 557723003215 RmuC family; Region: RmuC; pfam02646 557723003216 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 557723003217 dimer interface [polypeptide binding]; other site 557723003218 allosteric magnesium binding site [ion binding]; other site 557723003219 active site 557723003220 aspartate-rich active site metal binding site; other site 557723003221 Schiff base residues; other site 557723003222 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 557723003223 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 557723003224 ligand binding site [chemical binding]; other site 557723003225 flexible hinge region; other site 557723003226 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 557723003227 non-specific DNA interactions [nucleotide binding]; other site 557723003228 DNA binding site [nucleotide binding] 557723003229 sequence specific DNA binding site [nucleotide binding]; other site 557723003230 putative cAMP binding site [chemical binding]; other site 557723003231 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 557723003232 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 557723003233 FeS/SAM binding site; other site 557723003234 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 557723003235 ATP-dependent helicase HepA; Validated; Region: PRK04914 557723003236 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 557723003237 ATP binding site [chemical binding]; other site 557723003238 putative Mg++ binding site [ion binding]; other site 557723003239 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 557723003240 nucleotide binding region [chemical binding]; other site 557723003241 ATP-binding site [chemical binding]; other site 557723003242 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 557723003243 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 557723003244 active site 557723003245 dimer interface [polypeptide binding]; other site 557723003246 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 557723003247 dimer interface [polypeptide binding]; other site 557723003248 active site 557723003249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 557723003250 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 557723003251 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557723003252 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557723003253 shikimate binding site; other site 557723003254 NAD(P) binding site [chemical binding]; other site 557723003255 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557723003256 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557723003257 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557723003258 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 557723003259 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. 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 function as...; Region: ASCH_yqfb_like; cd06552 557723003260 recombination regulator RecX; Reviewed; Region: recX; PRK00117 557723003261 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 557723003262 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 557723003263 hexamer interface [polypeptide binding]; other site 557723003264 Walker A motif; other site 557723003265 ATP binding site [chemical binding]; other site 557723003266 Walker B motif; other site 557723003267 hypothetical protein; Provisional; Region: PRK07101 557723003268 para-aminobenzoate synthase component I; Validated; Region: PRK07093 557723003269 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 557723003270 tellurite resistance protein TehB; Provisional; Region: PRK12335 557723003271 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 557723003272 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 557723003273 S-adenosylmethionine binding site [chemical binding]; other site 557723003274 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 557723003275 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 557723003276 FMN binding site [chemical binding]; other site 557723003277 active site 557723003278 catalytic residues [active] 557723003279 substrate binding site [chemical binding]; other site 557723003280 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 557723003281 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 557723003282 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 557723003283 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 557723003284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557723003285 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 557723003286 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 557723003287 DNA binding residues [nucleotide binding] 557723003288 DNA primase; Validated; Region: dnaG; PRK05667 557723003289 CHC2 zinc finger; Region: zf-CHC2; pfam01807 557723003290 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 557723003291 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 557723003292 active site 557723003293 metal binding site [ion binding]; metal-binding site 557723003294 interdomain interaction site; other site 557723003295 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 557723003296 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 557723003297 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 557723003298 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 557723003299 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 557723003300 homodimer interface [polypeptide binding]; other site 557723003301 oligonucleotide binding site [chemical binding]; other site 557723003302 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 557723003303 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 557723003304 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 557723003305 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 557723003306 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 557723003307 AMP binding site [chemical binding]; other site 557723003308 metal binding site [ion binding]; metal-binding site 557723003309 active site 557723003310 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557723003311 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557723003312 peptide binding site [polypeptide binding]; other site 557723003313 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 557723003314 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557723003315 DNA binding site [nucleotide binding] 557723003316 domain linker motif; other site 557723003317 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 557723003318 dimerization interface [polypeptide binding]; other site 557723003319 ligand binding site [chemical binding]; other site 557723003320 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 557723003321 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 557723003322 PAS domain; Region: PAS; smart00091 557723003323 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 557723003324 Walker A motif; other site 557723003325 ATP binding site [chemical binding]; other site 557723003326 Walker B motif; other site 557723003327 arginine finger; other site 557723003328 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 557723003329 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 557723003330 peptide binding site [polypeptide binding]; other site 557723003331 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 557723003332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003333 ABC-ATPase subunit interface; other site 557723003334 putative PBP binding loops; other site 557723003335 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 557723003336 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 557723003337 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 557723003338 catalytic residues [active] 557723003339 central insert; other site 557723003340 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 557723003341 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 557723003342 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 557723003343 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 557723003344 binding surface 557723003345 TPR motif; other site 557723003346 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 557723003347 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 557723003348 bacterial Hfq-like; Region: Hfq; cd01716 557723003349 hexamer interface [polypeptide binding]; other site 557723003350 Sm1 motif; other site 557723003351 RNA binding site [nucleotide binding]; other site 557723003352 Sm2 motif; other site 557723003353 GTPase HflX; Provisional; Region: PRK11058 557723003354 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 557723003355 HflX GTPase family; Region: HflX; cd01878 557723003356 G1 box; other site 557723003357 GTP/Mg2+ binding site [chemical binding]; other site 557723003358 Switch I region; other site 557723003359 G2 box; other site 557723003360 G3 box; other site 557723003361 Switch II region; other site 557723003362 G4 box; other site 557723003363 G5 box; other site 557723003364 phosphoglycolate phosphatase; Provisional; Region: PRK13222 557723003365 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 557723003366 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 557723003367 motif II; other site 557723003368 N-acetylmannosamine kinase; Provisional; Region: PRK05082 557723003369 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557723003370 nucleotide binding site [chemical binding]; other site 557723003371 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 557723003372 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 557723003373 putative active site cavity [active] 557723003374 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 557723003375 putative kinase; Provisional; Region: PRK09954 557723003376 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 557723003377 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 557723003378 substrate binding site [chemical binding]; other site 557723003379 ATP binding site [chemical binding]; other site 557723003380 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 557723003381 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 557723003382 Nucleoside recognition; Region: Gate; pfam07670 557723003383 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 557723003384 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 557723003385 intersubunit interface [polypeptide binding]; other site 557723003386 active site 557723003387 catalytic residue [active] 557723003388 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 557723003389 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 557723003390 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_4; cd07268 557723003391 putative metal binding site [ion binding]; other site 557723003392 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 557723003393 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 557723003394 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 557723003395 active site 557723003396 HIGH motif; other site 557723003397 KMSK motif region; other site 557723003398 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 557723003399 tRNA binding surface [nucleotide binding]; other site 557723003400 anticodon binding site; other site 557723003401 elongation factor Tu; Reviewed; Region: PRK00049 557723003402 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557723003403 G1 box; other site 557723003404 GEF interaction site [polypeptide binding]; other site 557723003405 GTP/Mg2+ binding site [chemical binding]; other site 557723003406 Switch I region; other site 557723003407 G2 box; other site 557723003408 G3 box; other site 557723003409 Switch II region; other site 557723003410 G4 box; other site 557723003411 G5 box; other site 557723003412 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 557723003413 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 557723003414 Antibiotic Binding Site [chemical binding]; other site 557723003415 pantothenate kinase; Provisional; Region: PRK05439 557723003416 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 557723003417 ATP-binding site [chemical binding]; other site 557723003418 CoA-binding site [chemical binding]; other site 557723003419 Mg2+-binding site [ion binding]; other site 557723003420 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 557723003421 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 557723003422 S-adenosylmethionine binding site [chemical binding]; other site 557723003423 lipoyl synthase; Provisional; Region: PRK05481 557723003424 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 557723003425 FeS/SAM binding site; other site 557723003426 lipoate-protein ligase B; Provisional; Region: PRK14342 557723003427 hypothetical protein; Provisional; Region: PRK04998 557723003428 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 557723003429 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 557723003430 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 557723003431 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 557723003432 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 557723003433 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 557723003434 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 557723003435 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 557723003436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 557723003437 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 557723003438 Oligomerisation domain; Region: Oligomerisation; cl00519 557723003439 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 557723003440 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 557723003441 active site 557723003442 HslU subunit interaction site [polypeptide binding]; other site 557723003443 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 557723003444 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 557723003445 Walker A motif; other site 557723003446 ATP binding site [chemical binding]; other site 557723003447 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 557723003448 Walker B motif; other site 557723003449 arginine finger; other site 557723003450 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557723003451 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 557723003452 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 557723003453 dimer interface [polypeptide binding]; other site 557723003454 tetramer interface [polypeptide binding]; other site 557723003455 PYR/PP interface [polypeptide binding]; other site 557723003456 TPP binding site [chemical binding]; other site 557723003457 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 557723003458 TPP-binding site; other site 557723003459 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 557723003460 Protein of unknown function, DUF399; Region: DUF399; cl01139 557723003461 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 557723003462 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 557723003463 PhoH-like protein; Region: PhoH; pfam02562 557723003464 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557723003465 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 557723003466 primosome assembly protein PriA; Validated; Region: PRK05580 557723003467 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 557723003468 ATP binding site [chemical binding]; other site 557723003469 putative Mg++ binding site [ion binding]; other site 557723003470 helicase superfamily c-terminal domain; Region: HELICc; smart00490 557723003471 nucleotide binding region [chemical binding]; other site 557723003472 ATP-binding site [chemical binding]; other site 557723003473 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557723003474 Predicted permeases [General function prediction only]; Region: RarD; COG2962 557723003475 aminotransferase AlaT; Validated; Region: PRK09265 557723003476 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 557723003477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723003478 homodimer interface [polypeptide binding]; other site 557723003479 catalytic residue [active] 557723003480 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 557723003481 chorismate binding enzyme; Region: Chorismate_bind; cl10555 557723003482 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; cd01610 557723003483 active site 557723003484 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 557723003485 fructokinase; Reviewed; Region: PRK09557 557723003486 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 557723003487 nucleotide binding site [chemical binding]; other site 557723003488 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 557723003489 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 557723003490 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 557723003491 catalytic residue [active] 557723003492 putative FPP diphosphate binding site; other site 557723003493 putative FPP binding hydrophobic cleft; other site 557723003494 dimer interface [polypeptide binding]; other site 557723003495 putative IPP diphosphate binding site; other site 557723003496 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 557723003497 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 557723003498 zinc metallopeptidase RseP; Provisional; Region: PRK10779 557723003499 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 557723003500 active site 557723003501 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 557723003502 protein binding site [polypeptide binding]; other site 557723003503 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 557723003504 protein binding site [polypeptide binding]; other site 557723003505 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 557723003506 putative substrate binding region [chemical binding]; other site 557723003507 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 557723003508 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557723003509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557723003510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557723003511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 557723003512 Surface antigen; Region: Bac_surface_Ag; pfam01103 557723003513 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 557723003514 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 557723003515 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 557723003516 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 557723003517 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 557723003518 trimer interface [polypeptide binding]; other site 557723003519 active site 557723003520 UDP-GlcNAc binding site [chemical binding]; other site 557723003521 lipid binding site [chemical binding]; lipid-binding site 557723003522 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 557723003523 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 557723003524 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 557723003525 active site 557723003526 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 557723003527 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 557723003528 putative catalytic residues [active] 557723003529 putative nucleotide binding site [chemical binding]; other site 557723003530 putative aspartate binding site [chemical binding]; other site 557723003531 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 557723003532 dimer interface [polypeptide binding]; other site 557723003533 putative threonine allosteric regulatory site; other site 557723003534 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 557723003535 putative threonine allosteric regulatory site; other site 557723003536 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 557723003537 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 557723003538 homoserine kinase; Provisional; Region: PRK01212 557723003539 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557723003540 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 557723003541 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 557723003542 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 557723003543 arogenate dehydrogenase; Region: PLN02256 557723003544 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 557723003545 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 557723003546 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 557723003547 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 557723003548 putative active site [active] 557723003549 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 557723003550 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 557723003551 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 557723003552 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 557723003553 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 557723003554 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 557723003555 oligopeptidase A; Provisional; Region: PRK10911 557723003556 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 557723003557 active site 557723003558 Zn binding site [ion binding]; other site 557723003559 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 557723003560 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 557723003561 Prephenate dehydratase; Region: PDT; pfam00800 557723003562 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 557723003563 putative L-Phe binding site [chemical binding]; other site 557723003564 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 557723003565 ligand binding site [chemical binding]; other site 557723003566 active site 557723003567 UGI interface [polypeptide binding]; other site 557723003568 catalytic site [active] 557723003569 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 557723003570 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 557723003571 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557723003572 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557723003573 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 557723003574 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 557723003575 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 557723003576 carboxyltransferase (CT) interaction site; other site 557723003577 biotinylation site [posttranslational modification]; other site 557723003578 Dehydroquinase class II; Region: DHquinase_II; pfam01220 557723003579 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 557723003580 active site 557723003581 trimer interface [polypeptide binding]; other site 557723003582 dimer interface [polypeptide binding]; other site 557723003583 biotin synthase; Region: bioB; TIGR00433 557723003584 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 557723003585 FeS/SAM binding site; other site 557723003586 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 557723003587 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 557723003588 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 557723003589 trimer interface [polypeptide binding]; other site 557723003590 active site 557723003591 substrate binding site [chemical binding]; other site 557723003592 CoA binding site [chemical binding]; other site 557723003593 hypothetical protein; Provisional; Region: PRK11193 557723003594 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 557723003595 putative phosphate acyltransferase; Provisional; Region: PRK05331 557723003596 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 557723003597 inhibitor-cofactor binding pocket; inhibition site 557723003598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723003599 catalytic residue [active] 557723003600 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 557723003601 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723003602 catalytic residue [active] 557723003603 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 557723003604 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 557723003605 ribonuclease PH; Reviewed; Region: rph; PRK00173 557723003606 Ribonuclease PH; Region: RNase_PH_bact; cd11362 557723003607 hexamer interface [polypeptide binding]; other site 557723003608 active site 557723003609 hypothetical protein; Provisional; Region: PRK11820 557723003610 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 557723003611 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 557723003612 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 557723003613 FAD binding domain; Region: FAD_binding_4; pfam01565 557723003614 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 557723003615 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 557723003616 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 557723003617 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 557723003618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 557723003619 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 557723003620 MPT binding site; other site 557723003621 trimer interface [polypeptide binding]; other site 557723003622 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 557723003623 Nitrogen regulatory protein P-II; Region: P-II; smart00938 557723003624 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 557723003625 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 557723003626 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 557723003627 Uncharacterized conserved protein [Function unknown]; Region: COG2938 557723003628 endonuclease III; Region: ENDO3c; smart00478 557723003629 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 557723003630 helix-hairpin-helix signature motif; other site 557723003631 substrate binding pocket [chemical binding]; other site 557723003632 active site 557723003633 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 557723003634 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 557723003635 DNA binding and oxoG recognition site [nucleotide binding] 557723003636 oxidative damage protection protein; Provisional; Region: PRK05408 557723003637 murein transglycosylase C; Provisional; Region: mltC; PRK11671 557723003638 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 557723003639 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 557723003640 N-acetyl-D-glucosamine binding site [chemical binding]; other site 557723003641 catalytic residue [active] 557723003642 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 557723003643 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 557723003644 Cysteine-rich domain; Region: CCG; pfam02754 557723003645 Cysteine-rich domain; Region: CCG; pfam02754 557723003646 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 557723003647 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 557723003648 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 557723003649 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 557723003650 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 557723003651 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 557723003652 RNA binding surface [nucleotide binding]; other site 557723003653 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557723003654 active site 557723003655 Mechanosensitive ion channel; Region: MS_channel; pfam00924 557723003656 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 557723003657 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 557723003658 dimer interface [polypeptide binding]; other site 557723003659 substrate binding site [chemical binding]; other site 557723003660 metal binding sites [ion binding]; metal-binding site 557723003661 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 557723003662 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 557723003663 ATP binding site [chemical binding]; other site 557723003664 putative Mg++ binding site [ion binding]; other site 557723003665 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 557723003666 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 557723003667 nucleotide binding region [chemical binding]; other site 557723003668 ATP-binding site [chemical binding]; other site 557723003669 Fic family protein [Function unknown]; Region: COG3177 557723003670 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 557723003671 Fic/DOC family; Region: Fic; pfam02661 557723003672 DEAD-like helicases superfamily; Region: DEXDc; smart00487 557723003673 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 557723003674 ATP binding site [chemical binding]; other site 557723003675 putative Mg++ binding site [ion binding]; other site 557723003676 ketol-acid reductoisomerase; Validated; Region: PRK05225 557723003677 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 557723003678 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 557723003679 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 557723003680 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 557723003681 Na binding site [ion binding]; other site 557723003682 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 557723003683 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 557723003684 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 557723003685 Glutamate binding site [chemical binding]; other site 557723003686 NAD binding site [chemical binding]; other site 557723003687 catalytic residues [active] 557723003688 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 557723003689 dimer interface [polypeptide binding]; other site 557723003690 putative radical transfer pathway; other site 557723003691 diiron center [ion binding]; other site 557723003692 tyrosyl radical; other site 557723003693 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 557723003694 Class I ribonucleotide reductase; Region: RNR_I; cd01679 557723003695 active site 557723003696 dimer interface [polypeptide binding]; other site 557723003697 catalytic residues [active] 557723003698 effector binding site; other site 557723003699 R2 peptide binding site; other site 557723003700 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 557723003701 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 557723003702 Predicted membrane protein [Function unknown]; Region: COG1584 557723003703 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 557723003704 RuvA N terminal domain; Region: RuvA_N; pfam01330 557723003705 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 557723003706 helix-hairpin-helix signature motif; other site 557723003707 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 557723003708 hypothetical protein; Provisional; Region: PRK04860 557723003709 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 557723003710 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 557723003711 CAS motifs; other site 557723003712 active site 557723003713 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 557723003714 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 557723003715 dimer interface [polypeptide binding]; other site 557723003716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723003717 catalytic residue [active] 557723003718 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 557723003719 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 557723003720 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 557723003721 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 557723003722 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 557723003723 ATP binding site [chemical binding]; other site 557723003724 Mg2+ binding site [ion binding]; other site 557723003725 G-X-G motif; other site 557723003726 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 557723003727 ATP binding site [chemical binding]; other site 557723003728 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 557723003729 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 557723003730 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 557723003731 THF binding site; other site 557723003732 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 557723003733 substrate binding site [chemical binding]; other site 557723003734 THF binding site; other site 557723003735 zinc-binding site [ion binding]; other site 557723003736 recombination and repair protein; Provisional; Region: PRK10869 557723003737 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557723003738 Walker A/P-loop; other site 557723003739 ATP binding site [chemical binding]; other site 557723003740 Q-loop/lid; other site 557723003741 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 557723003742 Q-loop/lid; other site 557723003743 ABC transporter signature motif; other site 557723003744 Walker B; other site 557723003745 D-loop; other site 557723003746 H-loop/switch region; other site 557723003747 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 557723003748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 557723003749 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 557723003750 putative DNA-binding cleft [nucleotide binding]; other site 557723003751 putative DNA clevage site; other site 557723003752 molecular lever; other site 557723003753 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 557723003754 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723003755 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 557723003756 Walker A/P-loop; other site 557723003757 ATP binding site [chemical binding]; other site 557723003758 Q-loop/lid; other site 557723003759 ABC transporter signature motif; other site 557723003760 Walker B; other site 557723003761 D-loop; other site 557723003762 H-loop/switch region; other site 557723003763 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 557723003764 Sporulation related domain; Region: SPOR; pfam05036 557723003765 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 557723003766 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 557723003767 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 557723003768 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557723003769 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 557723003770 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 557723003771 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 557723003772 active site residue [active] 557723003773 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 557723003774 putative inner membrane peptidase; Provisional; Region: PRK11778 557723003775 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557723003776 tandem repeat interface [polypeptide binding]; other site 557723003777 oligomer interface [polypeptide binding]; other site 557723003778 active site residues [active] 557723003779 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 557723003780 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 557723003781 FMN binding site [chemical binding]; other site 557723003782 active site 557723003783 catalytic residues [active] 557723003784 substrate binding site [chemical binding]; other site 557723003785 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 557723003786 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 557723003787 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 557723003788 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 557723003789 S-adenosylmethionine binding site [chemical binding]; other site 557723003790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 557723003791 SCP-2 sterol transfer family; Region: SCP2; pfam02036 557723003792 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 557723003793 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 557723003794 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 557723003795 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 557723003796 Ligand Binding Site [chemical binding]; other site 557723003797 TilS substrate binding domain; Region: TilS; pfam09179 557723003798 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 557723003799 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 557723003800 putative active site [active] 557723003801 dimerization interface [polypeptide binding]; other site 557723003802 putative tRNAtyr binding site [nucleotide binding]; other site 557723003803 hypothetical protein; Reviewed; Region: PRK01637 557723003804 Mac 1; Region: Mac-1; pfam09028 557723003805 Autotransporter beta-domain; Region: Autotransporter; pfam03797 557723003806 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 557723003807 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 557723003808 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 557723003809 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 557723003810 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 557723003811 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 557723003812 putative catalytic cysteine [active] 557723003813 Autotransporter beta-domain; Region: Autotransporter; pfam03797 557723003814 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 557723003815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557723003816 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557723003817 ABC transporter; Region: ABC_tran_2; pfam12848 557723003818 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 557723003819 glutathione reductase; Validated; Region: PRK06116 557723003820 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557723003821 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557723003822 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 557723003823 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 557723003824 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 557723003825 FeS/SAM binding site; other site 557723003826 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 557723003827 active site 557723003828 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 557723003829 Ligand Binding Site [chemical binding]; other site 557723003830 Pirin-related protein [General function prediction only]; Region: COG1741 557723003831 Pirin; Region: Pirin; pfam02678 557723003832 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 557723003833 aminopeptidase B; Provisional; Region: PRK05015 557723003834 Peptidase; Region: DUF3663; pfam12404 557723003835 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 557723003836 interface (dimer of trimers) [polypeptide binding]; other site 557723003837 Substrate-binding/catalytic site; other site 557723003838 Zn-binding sites [ion binding]; other site 557723003839 Transcriptional regulator; Region: Rrf2; cl17282 557723003840 Rrf2 family protein; Region: rrf2_super; TIGR00738 557723003841 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 557723003842 sec-independent translocase; Provisional; Region: PRK01770 557723003843 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 557723003844 membrane protein insertase; Provisional; Region: PRK01318 557723003845 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 557723003846 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 557723003847 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 557723003848 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 557723003849 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 557723003850 active site 557723003851 Int/Topo IB signature motif; other site 557723003852 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 557723003853 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 557723003854 dimer interface [polypeptide binding]; other site 557723003855 ADP-ribose binding site [chemical binding]; other site 557723003856 active site 557723003857 nudix motif; other site 557723003858 metal binding site [ion binding]; metal-binding site 557723003859 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 557723003860 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 557723003861 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 557723003862 core dimer interface [polypeptide binding]; other site 557723003863 peripheral dimer interface [polypeptide binding]; other site 557723003864 L10 interface [polypeptide binding]; other site 557723003865 L11 interface [polypeptide binding]; other site 557723003866 putative EF-Tu interaction site [polypeptide binding]; other site 557723003867 putative EF-G interaction site [polypeptide binding]; other site 557723003868 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 557723003869 23S rRNA interface [nucleotide binding]; other site 557723003870 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 557723003871 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 557723003872 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 557723003873 active site 557723003874 (T/H)XGH motif; other site 557723003875 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 557723003876 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 557723003877 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 557723003878 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 557723003879 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 557723003880 putative active site [active] 557723003881 putative PHP Thumb interface [polypeptide binding]; other site 557723003882 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 557723003883 generic binding surface II; other site 557723003884 generic binding surface I; other site 557723003885 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 557723003886 AAA domain; Region: AAA_21; pfam13304 557723003887 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723003888 ABC transporter signature motif; other site 557723003889 Walker B; other site 557723003890 D-loop; other site 557723003891 H-loop/switch region; other site 557723003892 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 557723003893 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557723003894 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 557723003895 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 557723003896 multifunctional aminopeptidase A; Provisional; Region: PRK00913 557723003897 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 557723003898 interface (dimer of trimers) [polypeptide binding]; other site 557723003899 Substrate-binding/catalytic site; other site 557723003900 Zn-binding sites [ion binding]; other site 557723003901 putative protease; Provisional; Region: PRK15452 557723003902 Peptidase family U32; Region: Peptidase_U32; pfam01136 557723003903 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 557723003904 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 557723003905 active site 557723003906 Zn binding site [ion binding]; other site 557723003907 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 557723003908 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 557723003909 substrate binding site [chemical binding]; other site 557723003910 oxyanion hole (OAH) forming residues; other site 557723003911 trimer interface [polypeptide binding]; other site 557723003912 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 557723003913 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 557723003914 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 557723003915 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 557723003916 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 557723003917 alphaNTD homodimer interface [polypeptide binding]; other site 557723003918 alphaNTD - beta interaction site [polypeptide binding]; other site 557723003919 alphaNTD - beta' interaction site [polypeptide binding]; other site 557723003920 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 557723003921 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 557723003922 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 557723003923 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 557723003924 RNA binding surface [nucleotide binding]; other site 557723003925 30S ribosomal protein S11; Validated; Region: PRK05309 557723003926 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 557723003927 30S ribosomal protein S13; Region: bact_S13; TIGR03631 557723003928 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 557723003929 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 557723003930 SecY translocase; Region: SecY; pfam00344 557723003931 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 557723003932 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 557723003933 23S rRNA binding site [nucleotide binding]; other site 557723003934 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 557723003935 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 557723003936 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 557723003937 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 557723003938 23S rRNA interface [nucleotide binding]; other site 557723003939 L21e interface [polypeptide binding]; other site 557723003940 5S rRNA interface [nucleotide binding]; other site 557723003941 L27 interface [polypeptide binding]; other site 557723003942 L5 interface [polypeptide binding]; other site 557723003943 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 557723003944 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557723003945 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 557723003946 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 557723003947 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 557723003948 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 557723003949 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 557723003950 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 557723003951 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 557723003952 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 557723003953 RNA binding site [nucleotide binding]; other site 557723003954 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 557723003955 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 557723003956 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 557723003957 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 557723003958 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723003959 Walker A/P-loop; other site 557723003960 ATP binding site [chemical binding]; other site 557723003961 Q-loop/lid; other site 557723003962 ABC transporter signature motif; other site 557723003963 Walker B; other site 557723003964 D-loop; other site 557723003965 H-loop/switch region; other site 557723003966 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723003967 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723003968 Walker A/P-loop; other site 557723003969 ATP binding site [chemical binding]; other site 557723003970 Q-loop/lid; other site 557723003971 ABC transporter signature motif; other site 557723003972 Walker B; other site 557723003973 D-loop; other site 557723003974 H-loop/switch region; other site 557723003975 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557723003976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 557723003977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 557723003978 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723003979 dimer interface [polypeptide binding]; other site 557723003980 conserved gate region; other site 557723003981 putative PBP binding loops; other site 557723003982 ABC-ATPase subunit interface; other site 557723003983 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 557723003984 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 557723003985 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 557723003986 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 557723003987 molybdenum-pterin binding domain; Region: Mop; TIGR00638 557723003988 TOBE domain; Region: TOBE_2; pfam08402 557723003989 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 557723003990 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 557723003991 thymidylate synthase; Reviewed; Region: thyA; PRK01827 557723003992 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 557723003993 dimerization interface [polypeptide binding]; other site 557723003994 active site 557723003995 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 557723003996 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 557723003997 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 557723003998 ATP binding site [chemical binding]; other site 557723003999 active site 557723004000 substrate binding site [chemical binding]; other site 557723004001 hypothetical protein; Provisional; Region: PRK11212 557723004002 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 557723004003 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 557723004004 metal binding site [ion binding]; metal-binding site 557723004005 dimer interface [polypeptide binding]; other site 557723004006 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723004007 active site 557723004008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723004009 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723004010 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723004011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 557723004012 Putative esterase; Region: Esterase; pfam00756 557723004013 diaminopimelate decarboxylase; Region: lysA; TIGR01048 557723004014 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 557723004015 active site 557723004016 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557723004017 substrate binding site [chemical binding]; other site 557723004018 catalytic residues [active] 557723004019 dimer interface [polypeptide binding]; other site 557723004020 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; pfam03222 557723004021 aromatic amino acid transport protein; Region: araaP; TIGR00837 557723004022 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 557723004023 MutS domain I; Region: MutS_I; pfam01624 557723004024 MutS domain II; Region: MutS_II; pfam05188 557723004025 MutS domain III; Region: MutS_III; pfam05192 557723004026 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 557723004027 Walker A/P-loop; other site 557723004028 ATP binding site [chemical binding]; other site 557723004029 Q-loop/lid; other site 557723004030 ABC transporter signature motif; other site 557723004031 Walker B; other site 557723004032 D-loop; other site 557723004033 H-loop/switch region; other site 557723004034 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 557723004035 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 557723004036 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 557723004037 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 557723004038 protein binding site [polypeptide binding]; other site 557723004039 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 557723004040 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 557723004041 Carbon starvation protein CstA; Region: CstA; pfam02554 557723004042 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 557723004043 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 557723004044 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 557723004045 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 557723004046 SecA binding site; other site 557723004047 Preprotein binding site; other site 557723004048 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 557723004049 active site residue [active] 557723004050 trigger factor; Provisional; Region: tig; PRK01490 557723004051 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557723004052 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 557723004053 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 557723004054 active site 557723004055 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 557723004056 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 557723004057 glutaminase active site [active] 557723004058 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 557723004059 dimer interface [polypeptide binding]; other site 557723004060 active site 557723004061 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 557723004062 dimer interface [polypeptide binding]; other site 557723004063 active site 557723004064 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557723004065 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 557723004066 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557723004067 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 557723004068 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 557723004069 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 557723004070 Pathogenicity locus; Region: Cdd1; pfam11731 557723004071 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 557723004072 generic binding surface II; other site 557723004073 ssDNA binding site; other site 557723004074 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 557723004075 ATP binding site [chemical binding]; other site 557723004076 putative Mg++ binding site [ion binding]; other site 557723004077 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 557723004078 nucleotide binding region [chemical binding]; other site 557723004079 ATP-binding site [chemical binding]; other site 557723004080 Cupin superfamily protein; Region: Cupin_4; pfam08007 557723004081 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 557723004082 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 557723004083 conserved cys residue [active] 557723004084 BioY family; Region: BioY; pfam02632 557723004085 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 557723004086 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 557723004087 active site 557723004088 motif I; other site 557723004089 motif II; other site 557723004090 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 557723004091 motif II; other site 557723004092 DNA utilization protein GntX; Provisional; Region: PRK11595 557723004093 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723004094 active site 557723004095 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 557723004096 active site 557723004097 ribonuclease R; Region: RNase_R; TIGR02063 557723004098 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 557723004099 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 557723004100 RNB domain; Region: RNB; pfam00773 557723004101 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 557723004102 RNA binding site [nucleotide binding]; other site 557723004103 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 557723004104 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 557723004105 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 557723004106 DnaA N-terminal domain; Region: DnaA_N; pfam11638 557723004107 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 557723004108 Walker B motif; other site 557723004109 arginine finger; other site 557723004110 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 557723004111 DnaA box-binding interface [nucleotide binding]; other site 557723004112 DNA polymerase III subunit beta; Validated; Region: PRK05643 557723004113 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 557723004114 putative DNA binding surface [nucleotide binding]; other site 557723004115 dimer interface [polypeptide binding]; other site 557723004116 beta-clamp/clamp loader binding surface; other site 557723004117 beta-clamp/translesion DNA polymerase binding surface; other site 557723004118 YGGT family; Region: YGGT; pfam02325 557723004119 YGGT family; Region: YGGT; pfam02325 557723004120 hypothetical protein; Validated; Region: PRK05090 557723004121 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 557723004122 hypothetical protein; Provisional; Region: PRK11573 557723004123 Domain of unknown function DUF21; Region: DUF21; pfam01595 557723004124 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 557723004125 Transporter associated domain; Region: CorC_HlyC; smart01091 557723004126 signal recognition particle protein; Provisional; Region: PRK10867 557723004127 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 557723004128 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 557723004129 P loop; other site 557723004130 GTP binding site [chemical binding]; other site 557723004131 Signal peptide binding domain; Region: SRP_SPB; pfam02978 557723004132 FMN-binding protein MioC; Provisional; Region: PRK09004 557723004133 serine acetyltransferase; Provisional; Region: cysE; PRK11132 557723004134 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 557723004135 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 557723004136 trimer interface [polypeptide binding]; other site 557723004137 active site 557723004138 substrate binding site [chemical binding]; other site 557723004139 CoA binding site [chemical binding]; other site 557723004140 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 557723004141 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 557723004142 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 557723004143 two-component response regulator; Provisional; Region: PRK11173 557723004144 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 557723004145 active site 557723004146 phosphorylation site [posttranslational modification] 557723004147 intermolecular recognition site; other site 557723004148 dimerization interface [polypeptide binding]; other site 557723004149 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 557723004150 DNA binding site [nucleotide binding] 557723004151 cytidine deaminase; Provisional; Region: PRK09027 557723004152 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 557723004153 active site 557723004154 catalytic motif [active] 557723004155 Zn binding site [ion binding]; other site 557723004156 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 557723004157 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 557723004158 homooctamer interface [polypeptide binding]; other site 557723004159 active site 557723004160 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 557723004161 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 557723004162 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 557723004163 S-adenosylmethionine binding site [chemical binding]; other site 557723004164 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 557723004165 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 557723004166 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 557723004167 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 557723004168 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557723004169 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 557723004170 DNA-binding site [nucleotide binding]; DNA binding site 557723004171 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557723004172 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 557723004173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 557723004174 Lysis protein; Region: Lysis_col; pfam02402 557723004175 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 557723004176 L-fucose isomerase; Provisional; Region: fucI; PRK10991 557723004177 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 557723004178 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557723004179 trimer interface [polypeptide binding]; other site 557723004180 substrate binding site [chemical binding]; other site 557723004181 Mn binding site [ion binding]; other site 557723004182 L-fuculokinase; Provisional; Region: PRK10331 557723004183 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557723004184 nucleotide binding site [chemical binding]; other site 557723004185 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 557723004186 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; cd00398 557723004187 intersubunit interface [polypeptide binding]; other site 557723004188 active site 557723004189 Zn2+ binding site [ion binding]; other site 557723004190 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 557723004191 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 557723004192 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 557723004193 putative active site [active] 557723004194 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557723004195 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 557723004196 substrate binding site [chemical binding]; other site 557723004197 ATP binding site [chemical binding]; other site 557723004198 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 557723004199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 557723004200 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 557723004201 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 557723004202 PYR/PP interface [polypeptide binding]; other site 557723004203 dimer interface [polypeptide binding]; other site 557723004204 TPP binding site [chemical binding]; other site 557723004205 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 557723004206 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 557723004207 TPP-binding site; other site 557723004208 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 557723004209 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 557723004210 Metal-binding active site; metal-binding site 557723004211 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557723004212 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557723004213 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557723004214 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 557723004215 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 557723004216 Alpha-L-fucosidase; Region: Alpha_L_fucos; smart00812 557723004217 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 557723004218 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 557723004219 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 557723004220 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 557723004221 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557723004222 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557723004223 TM-ABC transporter signature motif; other site 557723004224 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557723004225 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557723004226 Walker A/P-loop; other site 557723004227 ATP binding site [chemical binding]; other site 557723004228 Q-loop/lid; other site 557723004229 ABC transporter signature motif; other site 557723004230 Walker B; other site 557723004231 D-loop; other site 557723004232 H-loop/switch region; other site 557723004233 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557723004234 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 557723004235 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 557723004236 putative ligand binding site [chemical binding]; other site 557723004237 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 557723004238 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 557723004239 tetrameric interface [polypeptide binding]; other site 557723004240 NAD binding site [chemical binding]; other site 557723004241 catalytic residues [active] 557723004242 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 557723004243 DsrH like protein; Region: DsrH; cl17347 557723004244 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 557723004245 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 557723004246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 557723004247 YheO-like PAS domain; Region: PAS_6; pfam08348 557723004248 HTH domain; Region: HTH_22; pfam13309 557723004249 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557723004250 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 557723004251 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557723004252 SlyX; Region: SlyX; pfam04102 557723004253 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 557723004254 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 557723004255 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 557723004256 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 557723004257 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 557723004258 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 557723004259 FeS/SAM binding site; other site 557723004260 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 557723004261 dimer interface [polypeptide binding]; other site 557723004262 motif 1; other site 557723004263 active site 557723004264 motif 2; other site 557723004265 motif 3; other site 557723004266 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 557723004267 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 557723004268 putative active site [active] 557723004269 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 557723004270 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 557723004271 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 557723004272 inhibitor-cofactor binding pocket; inhibition site 557723004273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723004274 catalytic residue [active] 557723004275 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 557723004276 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 557723004277 substrate-cofactor binding pocket; other site 557723004278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723004279 catalytic residue [active] 557723004280 Protein of unknown function (DUF452); Region: DUF452; cl01062 557723004281 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 557723004282 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 557723004283 S-adenosylmethionine binding site [chemical binding]; other site 557723004284 AAA domain; Region: AAA_26; pfam13500 557723004285 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 557723004286 sexual stage antigen; Provisional; Region: PTZ00360 557723004287 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 557723004288 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 557723004289 active site 557723004290 DNA binding site [nucleotide binding] 557723004291 Int/Topo IB signature motif; other site 557723004292 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 557723004293 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 557723004294 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 557723004295 DNA binding residues [nucleotide binding] 557723004296 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 557723004297 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557723004298 Protein of unknown function, DUF399; Region: DUF399; cl01139 557723004299 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 557723004300 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 557723004301 Walker A/P-loop; other site 557723004302 ATP binding site [chemical binding]; other site 557723004303 Q-loop/lid; other site 557723004304 ABC transporter signature motif; other site 557723004305 Walker B; other site 557723004306 D-loop; other site 557723004307 H-loop/switch region; other site 557723004308 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 557723004309 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 557723004310 ABC-ATPase subunit interface; other site 557723004311 dimer interface [polypeptide binding]; other site 557723004312 putative PBP binding regions; other site 557723004313 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 557723004314 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 557723004315 putative hemin binding site; other site 557723004316 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 557723004317 DNA protecting protein DprA; Region: dprA; TIGR00732 557723004318 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 557723004319 active site 557723004320 catalytic residues [active] 557723004321 metal binding site [ion binding]; metal-binding site 557723004322 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 557723004323 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 557723004324 NADP binding site [chemical binding]; other site 557723004325 homopentamer interface [polypeptide binding]; other site 557723004326 substrate binding site [chemical binding]; other site 557723004327 active site 557723004328 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557723004329 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 557723004330 non-specific DNA binding site [nucleotide binding]; other site 557723004331 salt bridge; other site 557723004332 sequence-specific DNA binding site [nucleotide binding]; other site 557723004333 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 557723004334 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 557723004335 Terminase small subunit; Region: Terminase_2; cl01513 557723004336 integrase; Provisional; Region: PRK09692 557723004337 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 557723004338 active site 557723004339 Int/Topo IB signature motif; other site 557723004340 selenocysteine synthase; Provisional; Region: PRK04311 557723004341 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 557723004342 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 557723004343 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557723004344 catalytic residue [active] 557723004345 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 557723004346 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 557723004347 G1 box; other site 557723004348 putative GEF interaction site [polypeptide binding]; other site 557723004349 GTP/Mg2+ binding site [chemical binding]; other site 557723004350 Switch I region; other site 557723004351 G2 box; other site 557723004352 G3 box; other site 557723004353 Switch II region; other site 557723004354 G4 box; other site 557723004355 G5 box; other site 557723004356 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 557723004357 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 557723004358 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 557723004359 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 557723004360 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 557723004361 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 557723004362 non-specific DNA binding site [nucleotide binding]; other site 557723004363 salt bridge; other site 557723004364 sequence-specific DNA binding site [nucleotide binding]; other site 557723004365 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 557723004366 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 557723004367 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 557723004368 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 557723004369 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 557723004370 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 557723004371 RPB1 interaction site [polypeptide binding]; other site 557723004372 RPB11 interaction site [polypeptide binding]; other site 557723004373 RPB10 interaction site [polypeptide binding]; other site 557723004374 RPB3 interaction site [polypeptide binding]; other site 557723004375 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 557723004376 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 557723004377 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 557723004378 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 557723004379 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 557723004380 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 557723004381 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557723004382 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 557723004383 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 557723004384 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 557723004385 DNA binding site [nucleotide binding] 557723004386 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 557723004387 recF protein; Region: recf; TIGR00611 557723004388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723004389 Walker A/P-loop; other site 557723004390 ATP binding site [chemical binding]; other site 557723004391 Q-loop/lid; other site 557723004392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723004393 ABC transporter signature motif; other site 557723004394 Walker B; other site 557723004395 D-loop; other site 557723004396 H-loop/switch region; other site 557723004397 hypothetical protein; Provisional; Region: PRK11702 557723004398 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 557723004399 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 557723004400 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 557723004401 dimer interface [polypeptide binding]; other site 557723004402 active site 557723004403 CoA binding pocket [chemical binding]; other site 557723004404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723004405 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723004406 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723004407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723004408 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723004409 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723004410 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 557723004411 fumarate hydratase; Reviewed; Region: fumC; PRK00485 557723004412 Class II fumarases; Region: Fumarase_classII; cd01362 557723004413 active site 557723004414 tetramer interface [polypeptide binding]; other site 557723004415 TfoX N-terminal domain; Region: TfoX_N; cl17592 557723004416 TfoX C-terminal domain; Region: TfoX_C; pfam04994 557723004417 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 557723004418 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 557723004419 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 557723004420 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 557723004421 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 557723004422 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 557723004423 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 557723004424 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 557723004425 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 557723004426 protein-rRNA interface [nucleotide binding]; other site 557723004427 putative translocon binding site; other site 557723004428 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 557723004429 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 557723004430 G-X-X-G motif; other site 557723004431 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 557723004432 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 557723004433 23S rRNA interface [nucleotide binding]; other site 557723004434 5S rRNA interface [nucleotide binding]; other site 557723004435 putative antibiotic binding site [chemical binding]; other site 557723004436 L25 interface [polypeptide binding]; other site 557723004437 L27 interface [polypeptide binding]; other site 557723004438 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 557723004439 23S rRNA interface [nucleotide binding]; other site 557723004440 putative translocon interaction site; other site 557723004441 signal recognition particle (SRP54) interaction site; other site 557723004442 L23 interface [polypeptide binding]; other site 557723004443 trigger factor interaction site; other site 557723004444 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 557723004445 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 557723004446 Neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: NanH; COG4409 557723004447 Asp-box motif; other site 557723004448 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 557723004449 transmembrane helices; other site 557723004450 TrkA-C domain; Region: TrkA_C; pfam02080 557723004451 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 557723004452 TrkA-C domain; Region: TrkA_C; pfam02080 557723004453 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 557723004454 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 557723004455 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 557723004456 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 557723004457 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 557723004458 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 557723004459 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 557723004460 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 557723004461 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 557723004462 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 557723004463 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557723004464 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 557723004465 beta subunit interaction interface [polypeptide binding]; other site 557723004466 Walker A motif; other site 557723004467 ATP binding site [chemical binding]; other site 557723004468 Walker B motif; other site 557723004469 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557723004470 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 557723004471 core domain interface [polypeptide binding]; other site 557723004472 delta subunit interface [polypeptide binding]; other site 557723004473 epsilon subunit interface [polypeptide binding]; other site 557723004474 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 557723004475 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 557723004476 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 557723004477 alpha subunit interaction interface [polypeptide binding]; other site 557723004478 Walker A motif; other site 557723004479 ATP binding site [chemical binding]; other site 557723004480 Walker B motif; other site 557723004481 inhibitor binding site; inhibition site 557723004482 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 557723004483 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 557723004484 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 557723004485 gamma subunit interface [polypeptide binding]; other site 557723004486 epsilon subunit interface [polypeptide binding]; other site 557723004487 LBP interface [polypeptide binding]; other site 557723004488 transcriptional repressor RbsR; Provisional; Region: PRK10423 557723004489 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557723004490 DNA binding site [nucleotide binding] 557723004491 domain linker motif; other site 557723004492 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 557723004493 D-ribose pyranase; Provisional; Region: PRK11797 557723004494 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 557723004495 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557723004496 Walker A/P-loop; other site 557723004497 ATP binding site [chemical binding]; other site 557723004498 Q-loop/lid; other site 557723004499 ABC transporter signature motif; other site 557723004500 Walker B; other site 557723004501 D-loop; other site 557723004502 H-loop/switch region; other site 557723004503 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557723004504 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557723004505 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557723004506 TM-ABC transporter signature motif; other site 557723004507 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 557723004508 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 557723004509 ligand binding site [chemical binding]; other site 557723004510 dimerization interface [polypeptide binding]; other site 557723004511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557723004512 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 557723004513 substrate binding site [chemical binding]; other site 557723004514 dimer interface [polypeptide binding]; other site 557723004515 ATP binding site [chemical binding]; other site 557723004516 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 557723004517 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 557723004518 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 557723004519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 557723004520 NAD(P) binding site [chemical binding]; other site 557723004521 active site 557723004522 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 557723004523 Helix-turn-helix domain; Region: HTH_18; pfam12833 557723004524 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 557723004525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557723004526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723004527 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557723004528 putative effector binding pocket; other site 557723004529 dimerization interface [polypeptide binding]; other site 557723004530 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 557723004531 Part of AAA domain; Region: AAA_19; pfam13245 557723004532 Family description; Region: UvrD_C_2; pfam13538 557723004533 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 557723004534 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 557723004535 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 557723004536 dimer interface [polypeptide binding]; other site 557723004537 anticodon binding site; other site 557723004538 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 557723004539 homodimer interface [polypeptide binding]; other site 557723004540 motif 1; other site 557723004541 active site 557723004542 motif 2; other site 557723004543 GAD domain; Region: GAD; pfam02938 557723004544 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557723004545 active site 557723004546 motif 3; other site 557723004547 GrpE; Region: GrpE; pfam01025 557723004548 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 557723004549 dimer interface [polypeptide binding]; other site 557723004550 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 557723004551 Predicted membrane protein [Function unknown]; Region: COG2707 557723004552 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 557723004553 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 557723004554 ATP binding site [chemical binding]; other site 557723004555 putative Mg++ binding site [ion binding]; other site 557723004556 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 557723004557 nucleotide binding region [chemical binding]; other site 557723004558 ATP-binding site [chemical binding]; other site 557723004559 Helicase associated domain (HA2); Region: HA2; pfam04408 557723004560 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 557723004561 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 557723004562 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 557723004563 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 557723004564 active site 557723004565 HIGH motif; other site 557723004566 dimer interface [polypeptide binding]; other site 557723004567 KMSKS motif; other site 557723004568 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 557723004569 RNA binding surface [nucleotide binding]; other site 557723004570 alanine racemase; Reviewed; Region: alr; PRK00053 557723004571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 557723004572 active site 557723004573 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557723004574 substrate binding site [chemical binding]; other site 557723004575 catalytic residues [active] 557723004576 dimer interface [polypeptide binding]; other site 557723004577 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 557723004578 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 557723004579 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 557723004580 uracil-xanthine permease; Region: ncs2; TIGR00801 557723004581 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 557723004582 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 557723004583 malonic semialdehyde reductase; Provisional; Region: PRK10538 557723004584 putative NAD(P) binding site [chemical binding]; other site 557723004585 homodimer interface [polypeptide binding]; other site 557723004586 homotetramer interface [polypeptide binding]; other site 557723004587 active site 557723004588 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 557723004589 active site clefts [active] 557723004590 zinc binding site [ion binding]; other site 557723004591 dimer interface [polypeptide binding]; other site 557723004592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723004593 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723004594 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723004595 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 557723004596 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557723004597 Walker A/P-loop; other site 557723004598 ATP binding site [chemical binding]; other site 557723004599 Q-loop/lid; other site 557723004600 ABC transporter signature motif; other site 557723004601 Walker B; other site 557723004602 D-loop; other site 557723004603 H-loop/switch region; other site 557723004604 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 557723004605 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 557723004606 FtsX-like permease family; Region: FtsX; pfam02687 557723004607 hypothetical protein; Validated; Region: PRK06886 557723004608 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 557723004609 active site 557723004610 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 557723004611 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 557723004612 putative ATP binding site [chemical binding]; other site 557723004613 putative substrate interface [chemical binding]; other site 557723004614 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 557723004615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 557723004616 Methyltransferase domain; Region: Methyltransf_31; pfam13847 557723004617 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 557723004618 S-adenosylmethionine binding site [chemical binding]; other site 557723004619 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557723004620 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557723004621 putative acyl-acceptor binding pocket; other site 557723004622 electron transport complex RsxE subunit; Provisional; Region: PRK12405 557723004623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 557723004624 electron transport complex protein RnfG; Validated; Region: PRK01908 557723004625 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 557723004626 Predicted membrane protein [Function unknown]; Region: COG2860 557723004627 UPF0126 domain; Region: UPF0126; pfam03458 557723004628 UPF0126 domain; Region: UPF0126; pfam03458 557723004629 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 557723004630 SLBB domain; Region: SLBB; pfam10531 557723004631 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 557723004632 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 557723004633 Putative Fe-S cluster; Region: FeS; pfam04060 557723004634 4Fe-4S binding domain; Region: Fer4; pfam00037 557723004635 electron transport complex protein RsxA; Provisional; Region: PRK05151 557723004636 pyridoxamine kinase; Validated; Region: PRK05756 557723004637 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 557723004638 dimer interface [polypeptide binding]; other site 557723004639 pyridoxal binding site [chemical binding]; other site 557723004640 ATP binding site [chemical binding]; other site 557723004641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723004642 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723004643 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723004644 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557723004645 Transposase; Region: HTH_Tnp_1; cl17663 557723004646 prolyl-tRNA synthetase; Provisional; Region: PRK09194 557723004647 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 557723004648 dimer interface [polypeptide binding]; other site 557723004649 motif 1; other site 557723004650 active site 557723004651 motif 2; other site 557723004652 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 557723004653 putative deacylase active site [active] 557723004654 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 557723004655 active site 557723004656 motif 3; other site 557723004657 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 557723004658 anticodon binding site; other site 557723004659 acyl carrier protein; Provisional; Region: acpP; PRK00982 557723004660 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 557723004661 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 557723004662 putative substrate binding site [chemical binding]; other site 557723004663 putative ATP binding site [chemical binding]; other site 557723004664 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 557723004665 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 557723004666 active site 557723004667 catalytic residues [active] 557723004668 galactokinase; Provisional; Region: PRK05101 557723004669 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 557723004670 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557723004671 DNA polymerase III subunit chi; Validated; Region: PRK05728 557723004672 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 557723004673 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 557723004674 acyl-activating enzyme (AAE) consensus motif; other site 557723004675 putative AMP binding site [chemical binding]; other site 557723004676 putative active site [active] 557723004677 putative CoA binding site [chemical binding]; other site 557723004678 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 557723004679 endonuclease IV; Provisional; Region: PRK01060 557723004680 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 557723004681 AP (apurinic/apyrimidinic) site pocket; other site 557723004682 DNA interaction; other site 557723004683 Metal-binding active site; metal-binding site 557723004684 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 557723004685 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 557723004686 23S rRNA interface [nucleotide binding]; other site 557723004687 L7/L12 interface [polypeptide binding]; other site 557723004688 putative thiostrepton binding site; other site 557723004689 L25 interface [polypeptide binding]; other site 557723004690 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 557723004691 mRNA/rRNA interface [nucleotide binding]; other site 557723004692 Predicted membrane protein [Function unknown]; Region: COG2259 557723004693 HsdM N-terminal domain; Region: HsdM_N; pfam12161 557723004694 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557723004695 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557723004696 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 557723004697 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 557723004698 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 557723004699 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 557723004700 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 557723004701 ATP binding site [chemical binding]; other site 557723004702 putative Mg++ binding site [ion binding]; other site 557723004703 Predicted transcriptional regulators [Transcription]; Region: COG1733 557723004704 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 557723004705 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 557723004706 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 557723004707 putative ligand binding site [chemical binding]; other site 557723004708 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 557723004709 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 557723004710 TM-ABC transporter signature motif; other site 557723004711 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 557723004712 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 557723004713 Walker A/P-loop; other site 557723004714 ATP binding site [chemical binding]; other site 557723004715 Q-loop/lid; other site 557723004716 ABC transporter signature motif; other site 557723004717 Walker B; other site 557723004718 D-loop; other site 557723004719 H-loop/switch region; other site 557723004720 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 557723004721 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 557723004722 mannose-6-phosphate isomerase; Region: PLN02288 557723004723 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 557723004724 hypothetical protein; Provisional; Region: PRK02913 557723004725 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 557723004726 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 557723004727 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 557723004728 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 557723004729 active pocket/dimerization site; other site 557723004730 active site 557723004731 phosphorylation site [posttranslational modification] 557723004732 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 557723004733 active site 557723004734 phosphorylation site [posttranslational modification] 557723004735 ferrochelatase; Reviewed; Region: hemH; PRK00035 557723004736 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 557723004737 C-terminal domain interface [polypeptide binding]; other site 557723004738 active site 557723004739 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 557723004740 active site 557723004741 N-terminal domain interface [polypeptide binding]; other site 557723004742 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 557723004743 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 557723004744 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 557723004745 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 557723004746 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 557723004747 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 557723004748 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 557723004749 HicB family; Region: HicB; pfam05534 557723004750 Mg chelatase-related protein; Region: TIGR00368 557723004751 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557723004752 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 557723004753 Walker A motif; other site 557723004754 ATP binding site [chemical binding]; other site 557723004755 Walker B motif; other site 557723004756 arginine finger; other site 557723004757 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 557723004758 DNA polymerase III subunit delta'; Validated; Region: PRK06871 557723004759 DNA polymerase III subunit delta'; Validated; Region: PRK08485 557723004760 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 557723004761 thymidylate kinase; Validated; Region: tmk; PRK00698 557723004762 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 557723004763 TMP-binding site; other site 557723004764 ATP-binding site [chemical binding]; other site 557723004765 YceG-like family; Region: YceG; pfam02618 557723004766 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 557723004767 dimerization interface [polypeptide binding]; other site 557723004768 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 557723004769 triosephosphate isomerase; Provisional; Region: PRK14567 557723004770 substrate binding site [chemical binding]; other site 557723004771 dimer interface [polypeptide binding]; other site 557723004772 catalytic triad [active] 557723004773 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 557723004774 Predicted membrane protein [Function unknown]; Region: COG1238 557723004775 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557723004776 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557723004777 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 557723004778 Peptidase family M23; Region: Peptidase_M23; pfam01551 557723004779 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 557723004780 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 557723004781 Paraquat-inducible protein A; Region: PqiA; pfam04403 557723004782 Paraquat-inducible protein A; Region: PqiA; pfam04403 557723004783 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 557723004784 RNA/DNA hybrid binding site [nucleotide binding]; other site 557723004785 active site 557723004786 putative global regulator; Reviewed; Region: PRK09559 557723004787 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 557723004788 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 557723004789 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 557723004790 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 557723004791 Methyltransferase domain; Region: Methyltransf_26; pfam13659 557723004792 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723004793 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723004794 Virulence protein [General function prediction only]; Region: COG3943 557723004795 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 557723004796 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 557723004797 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 557723004798 inhibitor-cofactor binding pocket; inhibition site 557723004799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723004800 catalytic residue [active] 557723004801 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 557723004802 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 557723004803 Mg++ binding site [ion binding]; other site 557723004804 putative catalytic motif [active] 557723004805 substrate binding site [chemical binding]; other site 557723004806 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 557723004807 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 557723004808 homodimer interface [polypeptide binding]; other site 557723004809 active site 557723004810 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 557723004811 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 557723004812 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 557723004813 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 557723004814 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 557723004815 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 557723004816 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 557723004817 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 557723004818 DsbD alpha interface [polypeptide binding]; other site 557723004819 catalytic residues [active] 557723004820 short chain dehydrogenase; Provisional; Region: PRK05993 557723004821 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 557723004822 NADP binding site [chemical binding]; other site 557723004823 active site 557723004824 steroid binding site; other site 557723004825 Helix-turn-helix domain; Region: HTH_38; pfam13936 557723004826 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 557723004827 Integrase core domain; Region: rve; pfam00665 557723004828 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 557723004829 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 557723004830 trmE is a tRNA modification GTPase; Region: trmE; cd04164 557723004831 G1 box; other site 557723004832 GTP/Mg2+ binding site [chemical binding]; other site 557723004833 Switch I region; other site 557723004834 G2 box; other site 557723004835 Switch II region; other site 557723004836 G3 box; other site 557723004837 G4 box; other site 557723004838 G5 box; other site 557723004839 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 557723004840 Protein of unknown function (DUF805); Region: DUF805; pfam05656 557723004841 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 557723004842 Dehydroquinase class II; Region: DHquinase_II; pfam01220 557723004843 active site 557723004844 trimer interface [polypeptide binding]; other site 557723004845 dimer interface [polypeptide binding]; other site 557723004846 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 557723004847 active site 557723004848 dimer interface [polypeptide binding]; other site 557723004849 magnesium binding site [ion binding]; other site 557723004850 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 557723004851 active site 557723004852 phosphorylation site [posttranslational modification] 557723004853 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 557723004854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 557723004855 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 557723004856 active site 557723004857 P-loop; other site 557723004858 phosphorylation site [posttranslational modification] 557723004859 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 557723004860 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 557723004861 AP (apurinic/apyrimidinic) site pocket; other site 557723004862 DNA interaction; other site 557723004863 Metal-binding active site; metal-binding site 557723004864 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 557723004865 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; cd00398 557723004866 intersubunit interface [polypeptide binding]; other site 557723004867 active site 557723004868 Zn2+ binding site [ion binding]; other site 557723004869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 557723004870 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 557723004871 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cd11523 557723004872 metal binding site [ion binding]; metal-binding site 557723004873 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 557723004874 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557723004875 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 557723004876 Shikimate kinase; Region: SKI; pfam01202 557723004877 ATP-binding site [chemical binding]; other site 557723004878 Gluconate-6-phosphate binding site [chemical binding]; other site 557723004879 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 557723004880 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 557723004881 DNA binding site [nucleotide binding] 557723004882 domain linker motif; other site 557723004883 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 557723004884 putative ligand binding site [chemical binding]; other site 557723004885 putative dimerization interface [polypeptide binding]; other site 557723004886 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 557723004887 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 557723004888 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 557723004889 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 557723004890 4Fe-4S binding domain; Region: Fer4_5; pfam12801 557723004891 4Fe-4S binding domain; Region: Fer4_6; pfam12837 557723004892 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 557723004893 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 557723004894 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 557723004895 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 557723004896 [4Fe-4S] binding site [ion binding]; other site 557723004897 molybdopterin cofactor binding site; other site 557723004898 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 557723004899 molybdopterin cofactor binding site; other site 557723004900 NapD protein; Region: NapD; pfam03927 557723004901 ferredoxin-type protein; Provisional; Region: PRK10194 557723004902 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 557723004903 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 557723004904 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 557723004905 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 557723004906 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 557723004907 substrate binding site [chemical binding]; other site 557723004908 hexamer interface [polypeptide binding]; other site 557723004909 metal binding site [ion binding]; metal-binding site 557723004910 Sulfatase; Region: Sulfatase; cl17466 557723004911 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 557723004912 putative transporter; Provisional; Region: PRK10484 557723004913 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 557723004914 Na binding site [ion binding]; other site 557723004915 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557723004916 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 557723004917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723004918 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 557723004919 dimerization interface [polypeptide binding]; other site 557723004920 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 557723004921 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557723004922 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 557723004923 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557723004924 catalytic residues [active] 557723004925 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 557723004926 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 557723004927 catalytic residues [active] 557723004928 hinge region; other site 557723004929 alpha helical domain; other site 557723004930 Protein of unknown function (DUF1040); Region: DUF1040; cl01176 557723004931 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 557723004932 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 557723004933 GTP binding site; other site 557723004934 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 557723004935 Walker A motif; other site 557723004936 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 557723004937 Transcriptional regulator [Transcription]; Region: IclR; COG1414 557723004938 Bacterial transcriptional regulator; Region: IclR; pfam01614 557723004939 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 557723004940 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 557723004941 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 557723004942 putative N- and C-terminal domain interface [polypeptide binding]; other site 557723004943 putative active site [active] 557723004944 MgATP binding site [chemical binding]; other site 557723004945 catalytic site [active] 557723004946 metal binding site [ion binding]; metal-binding site 557723004947 putative xylulose binding site [chemical binding]; other site 557723004948 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 557723004949 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 557723004950 putative homodimer interface [polypeptide binding]; other site 557723004951 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 557723004952 heterodimer interface [polypeptide binding]; other site 557723004953 homodimer interface [polypeptide binding]; other site 557723004954 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 557723004955 protease TldD; Provisional; Region: tldD; PRK10735 557723004956 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 557723004957 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557723004958 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 557723004959 non-specific DNA binding site [nucleotide binding]; other site 557723004960 salt bridge; other site 557723004961 sequence-specific DNA binding site [nucleotide binding]; other site 557723004962 HipA N-terminal domain; Region: Couple_hipA; pfam13657 557723004963 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 557723004964 HipA-like N-terminal domain; Region: HipA_N; pfam07805 557723004965 HipA-like C-terminal domain; Region: HipA_C; pfam07804 557723004966 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 557723004967 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 557723004968 catalytic residues [active] 557723004969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557723004970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723004971 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 557723004972 dimerization interface [polypeptide binding]; other site 557723004973 putative effector binding pocket; other site 557723004974 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 557723004975 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 557723004976 ATP binding site [chemical binding]; other site 557723004977 putative Mg++ binding site [ion binding]; other site 557723004978 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 557723004979 DNA methylase; Region: N6_N4_Mtase; pfam01555 557723004980 DNA methylase; Region: N6_N4_Mtase; pfam01555 557723004981 AAA domain; Region: AAA_14; pfam13173 557723004982 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 557723004983 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 557723004984 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 557723004985 DNA binding residues [nucleotide binding] 557723004986 dimer interface [polypeptide binding]; other site 557723004987 putative metal binding site [ion binding]; other site 557723004988 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 557723004989 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 557723004990 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 557723004991 DNA binding residues [nucleotide binding] 557723004992 dimer interface [polypeptide binding]; other site 557723004993 copper binding site [ion binding]; other site 557723004994 Domain of unknown function (DUF305); Region: DUF305; pfam03713 557723004995 Nitronate monooxygenase; Region: NMO; pfam03060 557723004996 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 557723004997 FMN binding site [chemical binding]; other site 557723004998 substrate binding site [chemical binding]; other site 557723004999 putative catalytic residue [active] 557723005000 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 557723005001 GIY-YIG motif/motif A; other site 557723005002 putative active site [active] 557723005003 putative metal binding site [ion binding]; other site 557723005004 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 557723005005 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 557723005006 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 557723005007 thiamine phosphate binding site [chemical binding]; other site 557723005008 active site 557723005009 pyrophosphate binding site [ion binding]; other site 557723005010 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 557723005011 dimer interface [polypeptide binding]; other site 557723005012 substrate binding site [chemical binding]; other site 557723005013 ATP binding site [chemical binding]; other site 557723005014 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 557723005015 substrate binding site [chemical binding]; other site 557723005016 multimerization interface [polypeptide binding]; other site 557723005017 ATP binding site [chemical binding]; other site 557723005018 protease TldD; Provisional; Region: tldD; PRK10735 557723005019 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 557723005020 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 557723005021 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 557723005022 non-specific DNA binding site [nucleotide binding]; other site 557723005023 salt bridge; other site 557723005024 sequence-specific DNA binding site [nucleotide binding]; other site 557723005025 HipA N-terminal domain; Region: Couple_hipA; pfam13657 557723005026 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 557723005027 HipA-like N-terminal domain; Region: HipA_N; pfam07805 557723005028 HipA-like C-terminal domain; Region: HipA_C; pfam07804 557723005029 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 557723005030 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 557723005031 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 557723005032 S-adenosylmethionine binding site [chemical binding]; other site 557723005033 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 557723005034 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 557723005035 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 557723005036 P loop; other site 557723005037 GTP binding site [chemical binding]; other site 557723005038 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 557723005039 Walker A/P-loop; other site 557723005040 ATP binding site [chemical binding]; other site 557723005041 ABC transporter; Region: ABC_tran; pfam00005 557723005042 Q-loop/lid; other site 557723005043 ABC transporter signature motif; other site 557723005044 Walker B; other site 557723005045 D-loop; other site 557723005046 H-loop/switch region; other site 557723005047 glutathionine S-transferase; Provisional; Region: PRK10542 557723005048 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 557723005049 C-terminal domain interface [polypeptide binding]; other site 557723005050 GSH binding site (G-site) [chemical binding]; other site 557723005051 dimer interface [polypeptide binding]; other site 557723005052 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 557723005053 N-terminal domain interface [polypeptide binding]; other site 557723005054 dimer interface [polypeptide binding]; other site 557723005055 substrate binding pocket (H-site) [chemical binding]; other site 557723005056 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 557723005057 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 557723005058 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 557723005059 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 557723005060 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 557723005061 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 557723005062 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 557723005063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 557723005064 putative aldolase; Validated; Region: PRK08130 557723005065 intersubunit interface [polypeptide binding]; other site 557723005066 active site 557723005067 Zn2+ binding site [ion binding]; other site 557723005068 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 557723005069 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 557723005070 Metal-binding active site; metal-binding site 557723005071 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 557723005072 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 557723005073 putative NAD(P) binding site [chemical binding]; other site 557723005074 active site 557723005075 putative substrate binding site [chemical binding]; other site 557723005076 GntP family permease; Region: GntP_permease; pfam02447 557723005077 fructuronate transporter; Provisional; Region: PRK10034; cl15264 557723005078 Predicted peptidase [General function prediction only]; Region: COG4099 557723005079 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 557723005080 D-lactate dehydrogenase; Provisional; Region: PRK11183 557723005081 FAD binding domain; Region: FAD_binding_4; pfam01565 557723005082 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 557723005083 glutamate racemase; Provisional; Region: PRK00865 557723005084 Chorismate lyase; Region: Chor_lyase; cl01230 557723005085 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 557723005086 active site 557723005087 catalytic triad [active] 557723005088 oxyanion hole [active] 557723005089 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 557723005090 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 557723005091 active site 557723005092 HIGH motif; other site 557723005093 dimer interface [polypeptide binding]; other site 557723005094 KMSKS motif; other site 557723005095 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 557723005096 chaperone protein DnaJ; Provisional; Region: PRK10767 557723005097 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 557723005098 HSP70 interaction site [polypeptide binding]; other site 557723005099 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 557723005100 substrate binding site [polypeptide binding]; other site 557723005101 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 557723005102 Zn binding sites [ion binding]; other site 557723005103 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 557723005104 dimer interface [polypeptide binding]; other site 557723005105 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 557723005106 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 557723005107 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 557723005108 nucleotide binding site [chemical binding]; other site 557723005109 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 557723005110 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 557723005111 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 557723005112 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 557723005113 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 557723005114 catalytic site [active] 557723005115 subunit interface [polypeptide binding]; other site 557723005116 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 557723005117 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557723005118 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 557723005119 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 557723005120 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 557723005121 ATP-grasp domain; Region: ATP-grasp_4; cl17255 557723005122 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 557723005123 IMP binding site; other site 557723005124 dimer interface [polypeptide binding]; other site 557723005125 interdomain contacts; other site 557723005126 partial ornithine binding site; other site 557723005127 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 557723005128 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 557723005129 ribonuclease P; Reviewed; Region: rnpA; PRK01732 557723005130 Haemolytic domain; Region: Haemolytic; pfam01809 557723005131 hypothetical protein; Provisional; Region: PRK11568 557723005132 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 557723005133 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 557723005134 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 557723005135 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 557723005136 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 557723005137 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 557723005138 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 557723005139 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 557723005140 Ligand Binding Site [chemical binding]; other site 557723005141 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 557723005142 active site 557723005143 NTP binding site [chemical binding]; other site 557723005144 metal binding triad [ion binding]; metal-binding site 557723005145 antibiotic binding site [chemical binding]; other site 557723005146 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 557723005147 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 557723005148 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 557723005149 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 557723005150 non-specific DNA binding site [nucleotide binding]; other site 557723005151 salt bridge; other site 557723005152 sequence-specific DNA binding site [nucleotide binding]; other site 557723005153 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 557723005154 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723005155 active site 557723005156 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 557723005157 DNA protecting protein DprA; Region: dprA; TIGR00732 557723005158 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 557723005159 oligomeric interface; other site 557723005160 putative active site [active] 557723005161 homodimer interface [polypeptide binding]; other site 557723005162 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 557723005163 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 557723005164 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 557723005165 putative active site [active] 557723005166 substrate binding site [chemical binding]; other site 557723005167 putative cosubstrate binding site; other site 557723005168 catalytic site [active] 557723005169 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 557723005170 substrate binding site [chemical binding]; other site 557723005171 16S rRNA methyltransferase B; Provisional; Region: PRK10901 557723005172 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 557723005173 putative RNA binding site [nucleotide binding]; other site 557723005174 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 557723005175 S-adenosylmethionine binding site [chemical binding]; other site 557723005176 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 557723005177 TrkA-N domain; Region: TrkA_N; pfam02254 557723005178 TrkA-C domain; Region: TrkA_C; pfam02080 557723005179 TrkA-N domain; Region: TrkA_N; pfam02254 557723005180 TrkA-C domain; Region: TrkA_C; pfam02080 557723005181 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 557723005182 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 557723005183 hexamer interface [polypeptide binding]; other site 557723005184 ligand binding site [chemical binding]; other site 557723005185 putative active site [active] 557723005186 NAD(P) binding site [chemical binding]; other site 557723005187 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 557723005188 Na2 binding site [ion binding]; other site 557723005189 putative substrate binding site 1 [chemical binding]; other site 557723005190 Na binding site 1 [ion binding]; other site 557723005191 putative substrate binding site 2 [chemical binding]; other site 557723005192 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 557723005193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 557723005194 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 557723005195 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 557723005196 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 557723005197 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557723005198 cofactor binding site; other site 557723005199 DNA binding site [nucleotide binding] 557723005200 substrate interaction site [chemical binding]; other site 557723005201 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557723005202 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 557723005203 cofactor binding site; other site 557723005204 DNA binding site [nucleotide binding] 557723005205 substrate interaction site [chemical binding]; other site 557723005206 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 557723005207 salt bridge; other site 557723005208 non-specific DNA binding site [nucleotide binding]; other site 557723005209 sequence-specific DNA binding site [nucleotide binding]; other site 557723005210 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 557723005211 Cation transport protein; Region: TrkH; cl17365 557723005212 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 557723005213 putative hydrolase; Provisional; Region: PRK10976 557723005214 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 557723005215 active site 557723005216 motif I; other site 557723005217 motif II; other site 557723005218 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 557723005219 2-isopropylmalate synthase; Validated; Region: PRK00915 557723005220 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 557723005221 active site 557723005222 metal binding site [ion binding]; metal-binding site 557723005223 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 557723005224 peptidase T; Region: peptidase-T; TIGR01882 557723005225 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 557723005226 metal binding site [ion binding]; metal-binding site 557723005227 dimer interface [polypeptide binding]; other site 557723005228 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 557723005229 23S rRNA binding site [nucleotide binding]; other site 557723005230 L21 binding site [polypeptide binding]; other site 557723005231 L13 binding site [polypeptide binding]; other site 557723005232 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 557723005233 translation initiation factor IF-3; Region: infC; TIGR00168 557723005234 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 557723005235 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 557723005236 UGMP family protein; Validated; Region: PRK09604 557723005237 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 557723005238 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 557723005239 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 557723005240 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 557723005241 shikimate binding site; other site 557723005242 NAD(P) binding site [chemical binding]; other site 557723005243 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557723005244 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 557723005245 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557723005246 putative substrate translocation pore; other site 557723005247 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 557723005248 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 557723005249 ATP binding site [chemical binding]; other site 557723005250 substrate interface [chemical binding]; other site 557723005251 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 557723005252 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 557723005253 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 557723005254 RimM N-terminal domain; Region: RimM; pfam01782 557723005255 PRC-barrel domain; Region: PRC; pfam05239 557723005256 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 557723005257 Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]; Region: PurU; COG0788 557723005258 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 557723005259 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 557723005260 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723005261 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723005262 TIR domain; Region: TIR_2; pfam13676 557723005263 Protein of unknown function DUF45; Region: DUF45; pfam01863 557723005264 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 557723005265 Protein of unknown function DUF262; Region: DUF262; pfam03235 557723005266 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 557723005267 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 557723005268 active site 557723005269 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723005270 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 557723005271 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 557723005272 dimer interface [polypeptide binding]; other site 557723005273 active site 557723005274 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 557723005275 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 557723005276 putative Zn2+ binding site [ion binding]; other site 557723005277 putative DNA binding site [nucleotide binding]; other site 557723005278 dimerization interface [polypeptide binding]; other site 557723005279 AsnC family; Region: AsnC_trans_reg; pfam01037 557723005280 uridine phosphorylase; Provisional; Region: PRK11178 557723005281 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 557723005282 hypothetical protein; Provisional; Region: PRK11027 557723005283 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 557723005284 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 557723005285 S-adenosylmethionine binding site [chemical binding]; other site 557723005286 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 557723005287 S17 interaction site [polypeptide binding]; other site 557723005288 S8 interaction site; other site 557723005289 16S rRNA interaction site [nucleotide binding]; other site 557723005290 streptomycin interaction site [chemical binding]; other site 557723005291 23S rRNA interaction site [nucleotide binding]; other site 557723005292 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 557723005293 30S ribosomal protein S7; Validated; Region: PRK05302 557723005294 elongation factor G; Reviewed; Region: PRK00007 557723005295 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 557723005296 G1 box; other site 557723005297 putative GEF interaction site [polypeptide binding]; other site 557723005298 GTP/Mg2+ binding site [chemical binding]; other site 557723005299 Switch I region; other site 557723005300 G2 box; other site 557723005301 G3 box; other site 557723005302 Switch II region; other site 557723005303 G4 box; other site 557723005304 G5 box; other site 557723005305 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 557723005306 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 557723005307 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 557723005308 elongation factor Tu; Reviewed; Region: PRK00049 557723005309 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 557723005310 G1 box; other site 557723005311 GEF interaction site [polypeptide binding]; other site 557723005312 GTP/Mg2+ binding site [chemical binding]; other site 557723005313 Switch I region; other site 557723005314 G2 box; other site 557723005315 G3 box; other site 557723005316 Switch II region; other site 557723005317 G4 box; other site 557723005318 G5 box; other site 557723005319 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 557723005320 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 557723005321 Antibiotic Binding Site [chemical binding]; other site 557723005322 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 557723005323 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 557723005324 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 557723005325 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 557723005326 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 557723005327 G1 box; other site 557723005328 putative GEF interaction site [polypeptide binding]; other site 557723005329 GTP/Mg2+ binding site [chemical binding]; other site 557723005330 Switch I region; other site 557723005331 G2 box; other site 557723005332 G3 box; other site 557723005333 Switch II region; other site 557723005334 G4 box; other site 557723005335 G5 box; other site 557723005336 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 557723005337 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557723005338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 557723005339 active site 557723005340 metal binding site [ion binding]; metal-binding site 557723005341 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 557723005342 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557723005343 active site 557723005344 nucleotide binding site [chemical binding]; other site 557723005345 HIGH motif; other site 557723005346 KMSKS motif; other site 557723005347 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 557723005348 Flavodoxin domain; Region: Flavodoxin_5; cl17428 557723005349 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 557723005350 active site 557723005351 motif I; other site 557723005352 motif II; other site 557723005353 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 557723005354 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 557723005355 dimerization interface [polypeptide binding]; other site 557723005356 ATP binding site [chemical binding]; other site 557723005357 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 557723005358 dimerization interface [polypeptide binding]; other site 557723005359 ATP binding site [chemical binding]; other site 557723005360 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 557723005361 putative active site [active] 557723005362 catalytic triad [active] 557723005363 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 557723005364 Transposase, Mutator family; Region: Transposase_mut; pfam00872 557723005365 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VirK; COG2990 557723005366 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 557723005367 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 557723005368 HIGH motif; other site 557723005369 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 557723005370 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 557723005371 active site 557723005372 KMSKS motif; other site 557723005373 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 557723005374 tRNA binding surface [nucleotide binding]; other site 557723005375 anticodon binding site; other site 557723005376 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 557723005377 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 557723005378 DNA methylase; Region: N6_N4_Mtase; pfam01555 557723005379 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 557723005380 S-adenosylmethionine binding site [chemical binding]; other site 557723005381 Fic family protein [Function unknown]; Region: COG3177 557723005382 Fic/DOC family; Region: Fic; pfam02661 557723005383 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 557723005384 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 557723005385 substrate binding site [chemical binding]; other site 557723005386 active site 557723005387 catalytic residues [active] 557723005388 heterodimer interface [polypeptide binding]; other site 557723005389 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 557723005390 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 557723005391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723005392 catalytic residue [active] 557723005393 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 557723005394 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 557723005395 active site 557723005396 ribulose/triose binding site [chemical binding]; other site 557723005397 phosphate binding site [ion binding]; other site 557723005398 substrate (anthranilate) binding pocket [chemical binding]; other site 557723005399 product (indole) binding pocket [chemical binding]; other site 557723005400 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 557723005401 active site 557723005402 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 557723005403 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 557723005404 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 557723005405 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 557723005406 Glutamine amidotransferase class-I; Region: GATase; pfam00117 557723005407 glutamine binding [chemical binding]; other site 557723005408 catalytic triad [active] 557723005409 anthranilate synthase component I; Provisional; Region: PRK13564 557723005410 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 557723005411 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 557723005412 Sulfatase; Region: Sulfatase; cl17466 557723005413 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 557723005414 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 557723005415 RNA binding surface [nucleotide binding]; other site 557723005416 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 557723005417 probable active site [active] 557723005418 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 557723005419 Fe-S metabolism associated domain; Region: SufE; cl00951 557723005420 Clp protease; Region: CLP_protease; pfam00574 557723005421 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 557723005422 oligomer interface [polypeptide binding]; other site 557723005423 active site residues [active] 557723005424 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 557723005425 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 557723005426 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 557723005427 Walker A motif; other site 557723005428 ATP binding site [chemical binding]; other site 557723005429 Walker B motif; other site 557723005430 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 557723005431 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 557723005432 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 557723005433 metal binding site [ion binding]; metal-binding site 557723005434 dimer interface [polypeptide binding]; other site 557723005435 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 557723005436 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557723005437 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 557723005438 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 557723005439 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 557723005440 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 557723005441 Walker A motif; other site 557723005442 ATP binding site [chemical binding]; other site 557723005443 Walker B motif; other site 557723005444 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 557723005445 putative active site [active] 557723005446 putative major pilin subunit; Provisional; Region: PRK10574 557723005447 DNA repair protein RadA; Provisional; Region: PRK11823 557723005448 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 557723005449 Walker A motif/ATP binding site; other site 557723005450 ATP binding site [chemical binding]; other site 557723005451 Walker B motif; other site 557723005452 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 557723005453 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 557723005454 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 557723005455 catalytic site [active] 557723005456 G-X2-G-X-G-K; other site 557723005457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723005458 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723005459 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723005460 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 557723005461 Part of AAA domain; Region: AAA_19; pfam13245 557723005462 Family description; Region: UvrD_C_2; pfam13538 557723005463 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 557723005464 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 557723005465 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 557723005466 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 557723005467 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 557723005468 putative RNA binding site [nucleotide binding]; other site 557723005469 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 557723005470 S-adenosylmethionine binding site [chemical binding]; other site 557723005471 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 557723005472 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 557723005473 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 557723005474 S-adenosylmethionine binding site [chemical binding]; other site 557723005475 DNA polymerase III subunit psi; Validated; Region: PRK06856 557723005476 Peptidase family M23; Region: Peptidase_M23; pfam01551 557723005477 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 557723005478 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 557723005479 Coenzyme A binding pocket [chemical binding]; other site 557723005480 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 557723005481 HipA-like N-terminal domain; Region: HipA_N; pfam07805 557723005482 HipA-like C-terminal domain; Region: HipA_C; pfam07804 557723005483 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 557723005484 non-specific DNA binding site [nucleotide binding]; other site 557723005485 salt bridge; other site 557723005486 sequence-specific DNA binding site [nucleotide binding]; other site 557723005487 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 557723005488 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 557723005489 ATP binding site [chemical binding]; other site 557723005490 Mg++ binding site [ion binding]; other site 557723005491 motif III; other site 557723005492 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 557723005493 nucleotide binding region [chemical binding]; other site 557723005494 ATP-binding site [chemical binding]; other site 557723005495 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 557723005496 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 557723005497 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 557723005498 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 557723005499 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 557723005500 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 557723005501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 557723005502 active site 557723005503 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 557723005504 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 557723005505 quinone interaction residues [chemical binding]; other site 557723005506 active site 557723005507 catalytic residues [active] 557723005508 FMN binding site [chemical binding]; other site 557723005509 substrate binding site [chemical binding]; other site 557723005510 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 557723005511 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 557723005512 ligand binding site [chemical binding]; other site 557723005513 flexible hinge region; other site 557723005514 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 557723005515 putative switch regulator; other site 557723005516 non-specific DNA interactions [nucleotide binding]; other site 557723005517 DNA binding site [nucleotide binding] 557723005518 sequence specific DNA binding site [nucleotide binding]; other site 557723005519 putative cAMP binding site [chemical binding]; other site 557723005520 hypothetical protein; Provisional; Region: PRK04966 557723005521 division inhibitor protein; Provisional; Region: slmA; PRK09480 557723005522 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 557723005523 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 557723005524 trimer interface [polypeptide binding]; other site 557723005525 active site 557723005526 Src Homology 3 domain superfamily; Region: SH3; cl17036 557723005527 peptide ligand binding site [polypeptide binding]; other site 557723005528 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 557723005529 Flavoprotein; Region: Flavoprotein; pfam02441 557723005530 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 557723005531 hypothetical protein; Reviewed; Region: PRK00024 557723005532 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 557723005533 MPN+ (JAMM) motif; other site 557723005534 Zinc-binding site [ion binding]; other site 557723005535 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 557723005536 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 557723005537 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 557723005538 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 557723005539 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 557723005540 active site 557723005541 phosphorylation site [posttranslational modification] 557723005542 intermolecular recognition site; other site 557723005543 dimerization interface [polypeptide binding]; other site 557723005544 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 557723005545 DNA binding site [nucleotide binding] 557723005546 sensor protein QseC; Provisional; Region: PRK10337 557723005547 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 557723005548 dimer interface [polypeptide binding]; other site 557723005549 phosphorylation site [posttranslational modification] 557723005550 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 557723005551 ATP binding site [chemical binding]; other site 557723005552 Mg2+ binding site [ion binding]; other site 557723005553 G-X-G motif; other site 557723005554 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 557723005555 oligomerisation interface [polypeptide binding]; other site 557723005556 mobile loop; other site 557723005557 roof hairpin; other site 557723005558 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 557723005559 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 557723005560 ring oligomerisation interface [polypeptide binding]; other site 557723005561 ATP/Mg binding site [chemical binding]; other site 557723005562 stacking interactions; other site 557723005563 hinge regions; other site 557723005564 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 557723005565 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 557723005566 dimer interface [polypeptide binding]; other site 557723005567 active site 557723005568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 557723005569 Helix-turn-helix domain; Region: HTH_28; pfam13518 557723005570 Helix-turn-helix domain; Region: HTH_28; pfam13518 557723005571 putative transposase OrfB; Reviewed; Region: PHA02517 557723005572 HTH-like domain; Region: HTH_21; pfam13276 557723005573 Integrase core domain; Region: rve; pfam00665 557723005574 Integrase core domain; Region: rve_2; pfam13333 557723005575 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 557723005576 GTPase CgtA; Reviewed; Region: obgE; PRK12298 557723005577 GTP1/OBG; Region: GTP1_OBG; pfam01018 557723005578 Obg GTPase; Region: Obg; cd01898 557723005579 G1 box; other site 557723005580 GTP/Mg2+ binding site [chemical binding]; other site 557723005581 Switch I region; other site 557723005582 G2 box; other site 557723005583 G3 box; other site 557723005584 Switch II region; other site 557723005585 G4 box; other site 557723005586 G5 box; other site 557723005587 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557723005588 EamA-like transporter family; Region: EamA; pfam00892 557723005589 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 557723005590 EamA-like transporter family; Region: EamA; pfam00892 557723005591 EamA-like transporter family; Region: EamA; pfam00892 557723005592 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 557723005593 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 557723005594 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 557723005595 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 557723005596 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 557723005597 active site 557723005598 dimer interface [polypeptide binding]; other site 557723005599 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 557723005600 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 557723005601 active site 557723005602 trimer interface [polypeptide binding]; other site 557723005603 allosteric site; other site 557723005604 active site lid [active] 557723005605 hexamer (dimer of trimers) interface [polypeptide binding]; other site 557723005606 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 557723005607 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557723005608 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 557723005609 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 557723005610 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 557723005611 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 557723005612 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 557723005613 Na binding site [ion binding]; other site 557723005614 Protein of unknown function (DUF997); Region: DUF997; pfam06196 557723005615 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 557723005616 dimerization interface [polypeptide binding]; other site 557723005617 DNA binding site [nucleotide binding] 557723005618 corepressor binding sites; other site 557723005619 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 557723005620 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 557723005621 Cl binding site [ion binding]; other site 557723005622 oligomer interface [polypeptide binding]; other site 557723005623 transcription-repair coupling factor; Provisional; Region: PRK10689 557723005624 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 557723005625 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 557723005626 ATP binding site [chemical binding]; other site 557723005627 putative Mg++ binding site [ion binding]; other site 557723005628 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 557723005629 nucleotide binding region [chemical binding]; other site 557723005630 ATP-binding site [chemical binding]; other site 557723005631 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 557723005632 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 557723005633 Major Facilitator Superfamily; Region: MFS_1; pfam07690 557723005634 putative substrate translocation pore; other site 557723005635 threonine synthase; Validated; Region: PRK09225 557723005636 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 557723005637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557723005638 catalytic residue [active] 557723005639 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 557723005640 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 557723005641 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 557723005642 dimer interface [polypeptide binding]; other site 557723005643 catalytic triad [active] 557723005644 peroxidatic and resolving cysteines [active] 557723005645 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 557723005646 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 557723005647 putative acyl-acceptor binding pocket; other site 557723005648 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 557723005649 FtsI repressor; Provisional; Region: PRK10883 557723005650 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 557723005651 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 557723005652 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 557723005653 Mor transcription activator family; Region: Mor; cl02360 557723005654 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 557723005655 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 557723005656 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 557723005657 active site turn [active] 557723005658 phosphorylation site [posttranslational modification] 557723005659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723005660 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723005661 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723005662 cystine transporter subunit; Provisional; Region: PRK11260 557723005663 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 557723005664 substrate binding pocket [chemical binding]; other site 557723005665 membrane-bound complex binding site; other site 557723005666 hinge residues; other site 557723005667 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 557723005668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723005669 dimer interface [polypeptide binding]; other site 557723005670 conserved gate region; other site 557723005671 putative PBP binding loops; other site 557723005672 ABC-ATPase subunit interface; other site 557723005673 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 557723005674 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 557723005675 Walker A/P-loop; other site 557723005676 ATP binding site [chemical binding]; other site 557723005677 Q-loop/lid; other site 557723005678 ABC transporter signature motif; other site 557723005679 Walker B; other site 557723005680 D-loop; other site 557723005681 H-loop/switch region; other site 557723005682 Uncharacterized conserved protein [Function unknown]; Region: COG1479 557723005683 Protein of unknown function DUF262; Region: DUF262; pfam03235 557723005684 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 557723005685 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 557723005686 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 557723005687 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 557723005688 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 557723005689 active site 557723005690 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 557723005691 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 557723005692 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 557723005693 active site 557723005694 FMN binding site [chemical binding]; other site 557723005695 substrate binding site [chemical binding]; other site 557723005696 3Fe-4S cluster binding site [ion binding]; other site 557723005697 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 557723005698 domain interface; other site 557723005699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723005700 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723005701 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723005702 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 557723005703 homotrimer interaction site [polypeptide binding]; other site 557723005704 putative active site [active] 557723005705 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 557723005706 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 557723005707 homodimer interface [polypeptide binding]; other site 557723005708 substrate-cofactor binding pocket; other site 557723005709 catalytic residue [active] 557723005710 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 557723005711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723005712 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 557723005713 dimerization interface [polypeptide binding]; other site 557723005714 substrate binding pocket [chemical binding]; other site 557723005715 dUMP phosphatase; Provisional; Region: PRK09449 557723005716 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 557723005717 motif II; other site 557723005718 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 557723005719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723005720 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 557723005721 substrate binding site [chemical binding]; other site 557723005722 dimerization interface [polypeptide binding]; other site 557723005723 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 557723005724 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 557723005725 active site 557723005726 metal binding site [ion binding]; metal-binding site 557723005727 hexamer interface [polypeptide binding]; other site 557723005728 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 557723005729 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 557723005730 putative ligand binding site [chemical binding]; other site 557723005731 putative NAD binding site [chemical binding]; other site 557723005732 catalytic site [active] 557723005733 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 557723005734 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 557723005735 cofactor binding site; other site 557723005736 DNA binding site [nucleotide binding] 557723005737 substrate interaction site [chemical binding]; other site 557723005738 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 557723005739 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557723005740 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 557723005741 cytoskeletal protein RodZ; Provisional; Region: PRK10856 557723005742 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 557723005743 non-specific DNA binding site [nucleotide binding]; other site 557723005744 salt bridge; other site 557723005745 sequence-specific DNA binding site [nucleotide binding]; other site 557723005746 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 557723005747 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 557723005748 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 557723005749 tandem repeat interface [polypeptide binding]; other site 557723005750 oligomer interface [polypeptide binding]; other site 557723005751 active site residues [active] 557723005752 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 557723005753 tandem repeat interface [polypeptide binding]; other site 557723005754 oligomer interface [polypeptide binding]; other site 557723005755 active site residues [active] 557723005756 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 557723005757 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 557723005758 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 557723005759 Walker A/P-loop; other site 557723005760 ATP binding site [chemical binding]; other site 557723005761 Q-loop/lid; other site 557723005762 ABC transporter signature motif; other site 557723005763 Walker B; other site 557723005764 D-loop; other site 557723005765 H-loop/switch region; other site 557723005766 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 557723005767 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 557723005768 DNA replication initiation factor; Validated; Region: PRK06893 557723005769 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 557723005770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723005771 Walker A/P-loop; other site 557723005772 ATP binding site [chemical binding]; other site 557723005773 Q-loop/lid; other site 557723005774 ABC transporter signature motif; other site 557723005775 Walker B; other site 557723005776 D-loop; other site 557723005777 H-loop/switch region; other site 557723005778 heme exporter protein CcmB; Region: ccmB; TIGR01190 557723005779 heme exporter protein CcmC; Region: ccmC; TIGR01191 557723005780 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 557723005781 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 557723005782 transmembrane helices; other site 557723005783 Citrate transporter; Region: CitMHS; pfam03600 557723005784 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 557723005785 Phosphoglycerate kinase; Region: PGK; pfam00162 557723005786 hinge regions; other site 557723005787 ADP binding site [chemical binding]; other site 557723005788 catalytic site [active] 557723005789 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 557723005790 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 557723005791 active site 557723005792 intersubunit interface [polypeptide binding]; other site 557723005793 zinc binding site [ion binding]; other site 557723005794 Na+ binding site [ion binding]; other site 557723005795 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 557723005796 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723005797 Walker A/P-loop; other site 557723005798 ATP binding site [chemical binding]; other site 557723005799 Q-loop/lid; other site 557723005800 ABC transporter signature motif; other site 557723005801 Walker B; other site 557723005802 D-loop; other site 557723005803 H-loop/switch region; other site 557723005804 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723005805 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 557723005806 dimer interface [polypeptide binding]; other site 557723005807 FMN binding site [chemical binding]; other site 557723005808 hypothetical protein; Provisional; Region: PRK05208 557723005809 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 557723005810 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 557723005811 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 557723005812 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 557723005813 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 557723005814 KpsF/GutQ family protein; Region: kpsF; TIGR00393 557723005815 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 557723005816 putative active site [active] 557723005817 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 557723005818 TPR repeat; Region: TPR_11; pfam13414 557723005819 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 557723005820 binding surface 557723005821 TPR motif; other site 557723005822 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557723005823 Tetratricopeptide repeat; Region: TPR_12; pfam13424 557723005824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 557723005825 Transposase; Region: DEDD_Tnp_IS110; pfam01548 557723005826 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 557723005827 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 557723005828 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 557723005829 FeS/SAM binding site; other site 557723005830 Predicted transcriptional regulator [Transcription]; Region: COG2944 557723005831 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 557723005832 non-specific DNA binding site [nucleotide binding]; other site 557723005833 salt bridge; other site 557723005834 sequence-specific DNA binding site [nucleotide binding]; other site 557723005835 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 557723005836 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557723005837 HIGH motif; other site 557723005838 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 557723005839 active site 557723005840 KMSKS motif; other site 557723005841 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 557723005842 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 557723005843 Soluble P-type ATPase [General function prediction only]; Region: COG4087 557723005844 Cytochrome b562; Region: Cytochrom_B562; cl01546 557723005845 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 557723005846 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 557723005847 dimer interface [polypeptide binding]; other site 557723005848 active site 557723005849 Restriction endonuclease [Defense mechanisms]; Region: COG3587 557723005850 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 557723005851 ATP binding site [chemical binding]; other site 557723005852 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 557723005853 DNA methylase; Region: N6_N4_Mtase; pfam01555 557723005854 DNA methylase; Region: N6_N4_Mtase; cl17433 557723005855 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 557723005856 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 557723005857 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 557723005858 GDP-binding site [chemical binding]; other site 557723005859 ACT binding site; other site 557723005860 IMP binding site; other site 557723005861 FtsH protease regulator HflC; Provisional; Region: PRK11029 557723005862 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 557723005863 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 557723005864 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 557723005865 HflK protein; Region: hflK; TIGR01933 557723005866 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 557723005867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 557723005868 Coenzyme A binding pocket [chemical binding]; other site 557723005869 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 557723005870 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 557723005871 inhibitor-cofactor binding pocket; inhibition site 557723005872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723005873 catalytic residue [active] 557723005874 FecCD transport family; Region: FecCD; pfam01032 557723005875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 557723005876 Walker A/P-loop; other site 557723005877 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 557723005878 ribonuclease T; Provisional; Region: PRK05168 557723005879 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 557723005880 active site 557723005881 catalytic site [active] 557723005882 substrate binding site [chemical binding]; other site 557723005883 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 557723005884 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 557723005885 dimer interface [polypeptide binding]; other site 557723005886 active site 557723005887 metal binding site [ion binding]; metal-binding site 557723005888 glutathione binding site [chemical binding]; other site 557723005889 hypothetical protein; Provisional; Region: PRK10695 557723005890 Predicted transcriptional regulator [Transcription]; Region: COG2944 557723005891 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 557723005892 non-specific DNA binding site [nucleotide binding]; other site 557723005893 salt bridge; other site 557723005894 sequence-specific DNA binding site [nucleotide binding]; other site 557723005895 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 557723005896 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 557723005897 Malic enzyme, N-terminal domain; Region: malic; pfam00390 557723005898 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 557723005899 putative NAD(P) binding site [chemical binding]; other site 557723005900 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 557723005901 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 557723005902 putative GSH binding site [chemical binding]; other site 557723005903 catalytic residues [active] 557723005904 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 557723005905 AAA domain; Region: AAA_30; pfam13604 557723005906 Family description; Region: UvrD_C_2; pfam13538 557723005907 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 557723005908 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 557723005909 N-terminal plug; other site 557723005910 ligand-binding site [chemical binding]; other site 557723005911 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 557723005912 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 557723005913 Surface antigen; Region: Bac_surface_Ag; pfam01103 557723005914 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 557723005915 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 557723005916 pyruvate kinase; Provisional; Region: PRK05826 557723005917 domain interfaces; other site 557723005918 active site 557723005919 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 557723005920 catalytic core [active] 557723005921 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 557723005922 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 557723005923 putative substrate translocation pore; other site 557723005924 sensory histidine kinase UhpB; Provisional; Region: PRK11644 557723005925 MASE1; Region: MASE1; pfam05231 557723005926 Histidine kinase; Region: HisKA_3; pfam07730 557723005927 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 557723005928 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 557723005929 active site 557723005930 ADP/pyrophosphate binding site [chemical binding]; other site 557723005931 dimerization interface [polypeptide binding]; other site 557723005932 allosteric effector site; other site 557723005933 fructose-1,6-bisphosphate binding site; other site 557723005934 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 557723005935 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 557723005936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 557723005937 catalytic residue [active] 557723005938 Staphylococcal nuclease homologues; Region: SNc; smart00318 557723005939 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 557723005940 Catalytic site; other site 557723005941 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 557723005942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 557723005943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 557723005944 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 557723005945 putative dimerization interface [polypeptide binding]; other site 557723005946 proline dipeptidase; Provisional; Region: PRK13607 557723005947 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 557723005948 active site 557723005949 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 557723005950 CPxP motif; other site 557723005951 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 557723005952 S-adenosylmethionine binding site [chemical binding]; other site 557723005953 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 557723005954 RNase E inhibitor protein; Provisional; Region: PRK11191 557723005955 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 557723005956 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 557723005957 G1 box; other site 557723005958 GTP/Mg2+ binding site [chemical binding]; other site 557723005959 Switch I region; other site 557723005960 G2 box; other site 557723005961 G3 box; other site 557723005962 Switch II region; other site 557723005963 G4 box; other site 557723005964 G5 box; other site 557723005965 Protein of unknown function (DUF805); Region: DUF805; pfam05656 557723005966 aminopeptidase N; Provisional; Region: pepN; PRK14015 557723005967 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 557723005968 active site 557723005969 Zn binding site [ion binding]; other site 557723005970 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 557723005971 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 557723005972 catalytic residue [active] 557723005973 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 557723005974 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 557723005975 active site 557723005976 motif I; other site 557723005977 motif II; other site 557723005978 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 557723005979 putative active site [active] 557723005980 putative substrate binding site [chemical binding]; other site 557723005981 dimer interface [polypeptide binding]; other site 557723005982 catalytic site [active] 557723005983 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 557723005984 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 557723005985 active site 557723005986 metal binding site [ion binding]; metal-binding site 557723005987 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 557723005988 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 557723005989 YwiC-like protein; Region: YwiC; pfam14256 557723005990 Uncharacterized conserved protein [Function unknown]; Region: COG1434 557723005991 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 557723005992 putative active site [active] 557723005993 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 557723005994 ligand binding site; other site 557723005995 tetramer interface; other site 557723005996 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557723005997 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 557723005998 active site 557723005999 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 557723006000 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 557723006001 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 557723006002 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 557723006003 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 557723006004 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 557723006005 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 557723006006 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 557723006007 ligand binding site [chemical binding]; other site 557723006008 homodimer interface [polypeptide binding]; other site 557723006009 NAD(P) binding site [chemical binding]; other site 557723006010 trimer interface B [polypeptide binding]; other site 557723006011 trimer interface A [polypeptide binding]; other site 557723006012 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 557723006013 rod shape-determining protein MreB; Provisional; Region: PRK13927 557723006014 MreB and similar proteins; Region: MreB_like; cd10225 557723006015 nucleotide binding site [chemical binding]; other site 557723006016 Mg binding site [ion binding]; other site 557723006017 putative protofilament interaction site [polypeptide binding]; other site 557723006018 RodZ interaction site [polypeptide binding]; other site 557723006019 rod shape-determining protein MreC; Region: MreC; pfam04085 557723006020 rod shape-determining protein MreD; Region: MreD; cl01087 557723006021 recombination factor protein RarA; Reviewed; Region: PRK13342 557723006022 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 557723006023 Walker A motif; other site 557723006024 ATP binding site [chemical binding]; other site 557723006025 Walker B motif; other site 557723006026 arginine finger; other site 557723006027 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 557723006028 Protein of unknown function (DUF560); Region: DUF560; pfam04575 557723006029 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 557723006030 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 557723006031 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 557723006032 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 557723006033 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 557723006034 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 557723006035 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557723006036 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 557723006037 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 557723006038 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 557723006039 30S subunit binding site; other site 557723006040 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 557723006041 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 557723006042 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 557723006043 putative acyl-acceptor binding pocket; other site 557723006044 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 557723006045 dimerization interface [polypeptide binding]; other site 557723006046 active site 557723006047 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 557723006048 hypothetical protein; Provisional; Region: PRK05170 557723006049 excinuclease ABC subunit B; Provisional; Region: PRK05298 557723006050 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 557723006051 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 557723006052 ATP-binding site [chemical binding]; other site 557723006053 ATP binding site [chemical binding]; other site 557723006054 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 557723006055 nucleotide binding region [chemical binding]; other site 557723006056 ATP-binding site [chemical binding]; other site 557723006057 Ultra-violet resistance protein B; Region: UvrB; pfam12344 557723006058 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 557723006059 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 557723006060 metal binding triad; other site 557723006061 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 557723006062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 557723006063 Zn2+ binding site [ion binding]; other site 557723006064 Mg2+ binding site [ion binding]; other site 557723006065 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 557723006066 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 557723006067 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 557723006068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723006069 putative PBP binding loops; other site 557723006070 dimer interface [polypeptide binding]; other site 557723006071 ABC-ATPase subunit interface; other site 557723006072 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 557723006073 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 557723006074 Walker A/P-loop; other site 557723006075 ATP binding site [chemical binding]; other site 557723006076 Q-loop/lid; other site 557723006077 ABC transporter signature motif; other site 557723006078 Walker B; other site 557723006079 D-loop; other site 557723006080 H-loop/switch region; other site 557723006081 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 557723006082 enolase; Provisional; Region: eno; PRK00077 557723006083 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 557723006084 dimer interface [polypeptide binding]; other site 557723006085 metal binding site [ion binding]; metal-binding site 557723006086 substrate binding pocket [chemical binding]; other site 557723006087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 557723006088 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 557723006089 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 557723006090 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 557723006091 ATP binding site [chemical binding]; other site 557723006092 Mg2+ binding site [ion binding]; other site 557723006093 G-X-G motif; other site 557723006094 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 557723006095 anchoring element; other site 557723006096 dimer interface [polypeptide binding]; other site 557723006097 ATP binding site [chemical binding]; other site 557723006098 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 557723006099 active site 557723006100 putative metal-binding site [ion binding]; other site 557723006101 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 557723006102 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 557723006103 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 557723006104 tetramer interface [polypeptide binding]; other site 557723006105 heme binding pocket [chemical binding]; other site 557723006106 NADPH binding site [chemical binding]; other site 557723006107 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 557723006108 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 557723006109 putative active site [active] 557723006110 putative metal binding site [ion binding]; other site 557723006111 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 557723006112 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 557723006113 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 557723006114 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 557723006115 active site 2 [active] 557723006116 active site 1 [active] 557723006117 hypothetical protein; Provisional; Region: PRK10506 557723006118 hypothetical protein; Provisional; Region: PRK10557 557723006119 multidrug efflux protein; Reviewed; Region: PRK01766 557723006120 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 557723006121 cation binding site [ion binding]; other site 557723006122 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 557723006123 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 557723006124 active site 557723006125 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 557723006126 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 557723006127 substrate binding pocket [chemical binding]; other site 557723006128 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 557723006129 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 557723006130 Walker A/P-loop; other site 557723006131 ATP binding site [chemical binding]; other site 557723006132 Q-loop/lid; other site 557723006133 ABC transporter signature motif; other site 557723006134 Walker B; other site 557723006135 D-loop; other site 557723006136 H-loop/switch region; other site 557723006137 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723006138 dimer interface [polypeptide binding]; other site 557723006139 conserved gate region; other site 557723006140 ABC-ATPase subunit interface; other site 557723006141 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 557723006142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 557723006143 dimer interface [polypeptide binding]; other site 557723006144 conserved gate region; other site 557723006145 putative PBP binding loops; other site 557723006146 ABC-ATPase subunit interface; other site 557723006147 Protein of unknown function (DUF533); Region: DUF533; pfam04391 557723006148 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 557723006149 putative metal binding site [ion binding]; other site 557723006150 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 557723006151 putative active site [active] 557723006152 Ap4A binding site [chemical binding]; other site 557723006153 nudix motif; other site 557723006154 putative metal binding site [ion binding]; other site 557723006155 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 557723006156 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 557723006157 LexA regulated protein; Provisional; Region: PRK11675 557723006158 flavodoxin FldA; Validated; Region: PRK09267 557723006159 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 557723006160 metal binding site 2 [ion binding]; metal-binding site 557723006161 putative DNA binding helix; other site 557723006162 metal binding site 1 [ion binding]; metal-binding site 557723006163 dimer interface [polypeptide binding]; other site 557723006164 structural Zn2+ binding site [ion binding]; other site 557723006165 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 557723006166 mce related protein; Region: MCE; pfam02470 557723006167 mce related protein; Region: MCE; pfam02470 557723006168 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 557723006169 mce related protein; Region: MCE; pfam02470 557723006170 mce related protein; Region: MCE; pfam02470 557723006171 mce related protein; Region: MCE; pfam02470 557723006172 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 557723006173 ProP expression regulator; Provisional; Region: PRK04950 557723006174 ProQ/FINO family; Region: ProQ; smart00945 557723006175 carboxy-terminal protease; Provisional; Region: PRK11186 557723006176 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 557723006177 protein binding site [polypeptide binding]; other site 557723006178 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 557723006179 Catalytic dyad [active] 557723006180 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 557723006181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 557723006182 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557723006183 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 557723006184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 557723006185 Peptidase M15; Region: Peptidase_M15_3; cl01194 557723006186 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 557723006187 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 557723006188 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 557723006189 cystathionine gamma-synthase; Reviewed; Region: PRK08247 557723006190 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 557723006191 homodimer interface [polypeptide binding]; other site 557723006192 substrate-cofactor binding pocket; other site 557723006193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 557723006194 catalytic residue [active] 557723006195 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 557723006196 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 557723006197 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 557723006198 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 557723006199 FAD binding site [chemical binding]; other site 557723006200 isocitrate dehydrogenase; Validated; Region: PRK07362 557723006201 isocitrate dehydrogenase; Reviewed; Region: PRK07006 557723006202 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 557723006203 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 557723006204 substrate binding site [chemical binding]; other site 557723006205 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 557723006206 substrate binding site [chemical binding]; other site 557723006207 ligand binding site [chemical binding]; other site 557723006208 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 557723006209 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 557723006210 dimer interface [polypeptide binding]; other site 557723006211 active site 557723006212 citrylCoA binding site [chemical binding]; other site 557723006213 NADH binding [chemical binding]; other site 557723006214 cationic pore residues; other site 557723006215 oxalacetate/citrate binding site [chemical binding]; other site 557723006216 coenzyme A binding site [chemical binding]; other site 557723006217 catalytic triad [active] 557723006218 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 557723006219 Adenylate kinase; Region: ADK; pfam00406 557723006220 AMP-binding site [chemical binding]; other site 557723006221 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 557723006222 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 557723006223 Na2 binding site [ion binding]; other site 557723006224 putative substrate binding site 1 [chemical binding]; other site 557723006225 Na binding site 1 [ion binding]; other site 557723006226 putative substrate binding site 2 [chemical binding]; other site 557723006227 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 557723006228 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 557723006229 active site 557723006230 dimer interface [polypeptide binding]; other site 557723006231 metal binding site [ion binding]; metal-binding site 557723006232 shikimate kinase; Reviewed; Region: aroK; PRK00131 557723006233 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 557723006234 ADP binding site [chemical binding]; other site 557723006235 magnesium binding site [ion binding]; other site 557723006236 putative shikimate binding site; other site 557723006237 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 557723006238 Transglycosylase; Region: Transgly; pfam00912 557723006239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 557723006240 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 557723006241 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 557723006242 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 557723006243 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 557723006244 putative RNA binding site [nucleotide binding]; other site 557723006245 thiamine monophosphate kinase; Provisional; Region: PRK05731 557723006246 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 557723006247 ATP binding site [chemical binding]; other site 557723006248 dimerization interface [polypeptide binding]; other site 557723006249 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 557723006250 tetramer interfaces [polypeptide binding]; other site 557723006251 binuclear metal-binding site [ion binding]; other site 557723006252 LysE type translocator; Region: LysE; cl00565 557723006253 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 557723006254 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 557723006255 catalytic residues [active] 557723006256 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 557723006257 CoenzymeA binding site [chemical binding]; other site 557723006258 subunit interaction site [polypeptide binding]; other site 557723006259 PHB binding site; other site 557723006260 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 557723006261 FAD binding domain; Region: FAD_binding_4; pfam01565 557723006262 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 557723006263 outer membrane protein A; Reviewed; Region: PRK10808 557723006264 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 557723006265 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 557723006266 ligand binding site [chemical binding]; other site 557723006267 methionine sulfoxide reductase B; Provisional; Region: PRK00222 557723006268 SelR domain; Region: SelR; pfam01641