-- dump date 20140620_034218 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105098000001 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105098000002 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 1105098000003 dimerization interface [polypeptide binding]; other site 1105098000004 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 1105098000005 dimer interface [polypeptide binding]; other site 1105098000006 phosphorylation site [posttranslational modification] 1105098000007 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 1105098000008 ATP binding site [chemical binding]; other site 1105098000009 Mg2+ binding site [ion binding]; other site 1105098000010 G-X-G motif; other site 1105098000011 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1105098000012 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105098000013 COQ9; Region: COQ9; pfam08511 1105098000014 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105098000015 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105098000016 HIGH motif; other site 1105098000017 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105098000018 active site 1105098000019 KMSKS motif; other site 1105098000020 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105098000021 tRNA binding surface [nucleotide binding]; other site 1105098000022 anticodon binding site; other site 1105098000023 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105098000024 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105098000025 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105098000026 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105098000027 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 1105098000028 carboxyltransferase (CT) interaction site; other site 1105098000029 biotinylation site [posttranslational modification]; other site 1105098000030 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105098000031 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105098000032 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105098000033 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105098000034 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 1105098000035 putative substrate translocation pore; other site 1105098000036 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105098000037 putative acyl-acceptor binding pocket; other site 1105098000038 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105098000039 acyl-activating enzyme (AAE) consensus motif; other site 1105098000040 putative AMP binding site [chemical binding]; other site 1105098000041 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 1105098000042 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105098000043 dimer interface [polypeptide binding]; other site 1105098000044 putative PBP binding regions; other site 1105098000045 ABC-ATPase subunit interface; other site 1105098000046 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105098000047 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 1105098000048 S-adenosylmethionine binding site [chemical binding]; other site 1105098000049 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105098000050 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105098000051 HIGH motif; other site 1105098000052 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105098000053 active site 1105098000054 KMSKS motif; other site 1105098000055 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105098000056 HD domain; Region: HD_4; pfam13328 1105098000057 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105098000058 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105098000059 synthetase active site [active] 1105098000060 NTP binding site [chemical binding]; other site 1105098000061 metal binding site [ion binding]; metal-binding site 1105098000062 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105098000063 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 1105098000064 ring oligomerisation interface [polypeptide binding]; other site 1105098000065 ATP/Mg binding site [chemical binding]; other site 1105098000066 stacking interactions; other site 1105098000067 hinge regions; other site 1105098000068 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 1105098000069 oligomerisation interface [polypeptide binding]; other site 1105098000070 mobile loop; other site 1105098000071 roof hairpin; other site 1105098000072 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105098000073 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105098000074 hexamer interface [polypeptide binding]; other site 1105098000075 active site 1105098000076 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1105098000077 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 1105098000078 dimer interface [polypeptide binding]; other site 1105098000079 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105098000080 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105098000081 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105098000082 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105098000083 hypothetical protein; Validated; Region: PRK06620 1105098000084 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105098000085 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105098000086 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105098000087 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105098000088 alphaNTD - beta interaction site [polypeptide binding]; other site 1105098000089 alphaNTD homodimer interface [polypeptide binding]; other site 1105098000090 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105098000091 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105098000092 30S ribosomal protein S11; Validated; Region: PRK05309 1105098000093 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105098000094 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105098000095 adenylate kinase; Reviewed; Region: adk; PRK00279 1105098000096 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 1105098000097 AMP-binding site [chemical binding]; other site 1105098000098 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105098000099 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105098000100 SecY translocase; Region: SecY; pfam00344 1105098000101 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105098000102 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 1105098000103 23S rRNA binding site [nucleotide binding]; other site 1105098000104 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105098000105 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105098000106 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105098000107 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 1105098000108 5S rRNA interface [nucleotide binding]; other site 1105098000109 23S rRNA interface [nucleotide binding]; other site 1105098000110 L5 interface [polypeptide binding]; other site 1105098000111 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105098000112 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105098000113 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105098000114 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105098000115 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105098000116 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105098000117 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105098000118 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105098000119 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105098000120 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105098000121 RNA binding site [nucleotide binding]; other site 1105098000122 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105098000123 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105098000124 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 1105098000125 L23 interface [polypeptide binding]; other site 1105098000126 trigger factor interaction site; other site 1105098000127 23S rRNA interface [nucleotide binding]; other site 1105098000128 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 1105098000129 23S rRNA interface [nucleotide binding]; other site 1105098000130 5S rRNA interface [nucleotide binding]; other site 1105098000131 putative antibiotic binding site [chemical binding]; other site 1105098000132 L25 interface [polypeptide binding]; other site 1105098000133 L27 interface [polypeptide binding]; other site 1105098000134 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1105098000135 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 1105098000136 G-X-X-G motif; other site 1105098000137 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105098000138 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 1105098000139 putative translocon binding site; other site 1105098000140 protein-rRNA interface [nucleotide binding]; other site 1105098000141 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105098000142 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105098000143 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105098000144 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105098000145 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105098000146 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105098000147 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105098000148 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105098000149 elongation factor Tu; Reviewed; Region: PRK00049 1105098000150 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105098000151 G1 box; other site 1105098000152 GEF interaction site [polypeptide binding]; other site 1105098000153 GTP/Mg2+ binding site [chemical binding]; other site 1105098000154 Switch I region; other site 1105098000155 G2 box; other site 1105098000156 G3 box; other site 1105098000157 Switch II region; other site 1105098000158 G4 box; other site 1105098000159 G5 box; other site 1105098000160 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 1105098000161 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 1105098000162 Antibiotic Binding Site [chemical binding]; other site 1105098000163 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105098000164 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105098000165 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105098000166 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105098000167 Class II fumarases; Region: Fumarase_classII; cd01362 1105098000168 active site 1105098000169 tetramer interface [polypeptide binding]; other site 1105098000170 cell division protein FtsZ; Validated; Region: PRK09330 1105098000171 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 1105098000172 nucleotide binding site [chemical binding]; other site 1105098000173 SulA interaction site; other site 1105098000174 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105098000175 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105098000176 muropeptide transporter; Validated; Region: ampG; cl17669 1105098000177 potential frameshift: common BLAST hit: gi|15604513|ref|NP_221031.1| ATP-dependent RNA helicase RHLE (rhlE) 1105098000178 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 1105098000179 DNA-binding site [nucleotide binding]; DNA binding site 1105098000180 RNA-binding motif; other site 1105098000181 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105098000182 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 1105098000183 S-adenosylmethionine binding site [chemical binding]; other site 1105098000184 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105098000185 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105098000186 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105098000187 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105098000188 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 1105098000189 generic binding surface II; other site 1105098000190 generic binding surface I; other site 1105098000191 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 1105098000192 putative catalytic site [active] 1105098000193 putative phosphate binding site [ion binding]; other site 1105098000194 active site 1105098000195 metal binding site A [ion binding]; metal-binding site 1105098000196 DNA binding site [nucleotide binding] 1105098000197 putative AP binding site [nucleotide binding]; other site 1105098000198 putative metal binding site B [ion binding]; other site 1105098000199 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105098000200 GTP-binding protein Der; Reviewed; Region: PRK00093 1105098000201 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105098000202 G1 box; other site 1105098000203 GTP/Mg2+ binding site [chemical binding]; other site 1105098000204 Switch I region; other site 1105098000205 G2 box; other site 1105098000206 Switch II region; other site 1105098000207 G3 box; other site 1105098000208 G4 box; other site 1105098000209 G5 box; other site 1105098000210 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105098000211 G1 box; other site 1105098000212 GTP/Mg2+ binding site [chemical binding]; other site 1105098000213 Switch I region; other site 1105098000214 G2 box; other site 1105098000215 G3 box; other site 1105098000216 Switch II region; other site 1105098000217 G4 box; other site 1105098000218 G5 box; other site 1105098000219 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105098000220 ABC1 family; Region: ABC1; pfam03109 1105098000221 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 1105098000222 active site 1105098000223 ATP binding site [chemical binding]; other site 1105098000224 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105098000225 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 1105098000226 S-adenosylmethionine binding site [chemical binding]; other site 1105098000227 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1105098000228 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1105098000229 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105098000230 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105098000231 active site 1105098000232 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105098000233 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105098000234 active site 1105098000235 HIGH motif; other site 1105098000236 KMSKS motif; other site 1105098000237 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105098000238 tRNA binding surface [nucleotide binding]; other site 1105098000239 anticodon binding site; other site 1105098000240 thymidylate kinase; Validated; Region: tmk; PRK00698 1105098000241 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 1105098000242 TMP-binding site; other site 1105098000243 ATP-binding site [chemical binding]; other site 1105098000244 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098000245 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 1105098000246 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105098000247 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105098000248 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105098000249 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105098000250 active site 1105098000251 HIGH motif; other site 1105098000252 nucleotide binding site [chemical binding]; other site 1105098000253 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105098000254 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1105098000255 active site 1105098000256 KMSKS motif; other site 1105098000257 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105098000258 tRNA binding surface [nucleotide binding]; other site 1105098000259 anticodon binding site; other site 1105098000260 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105098000261 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105098000262 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105098000263 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105098000264 RmuC family; Region: RmuC; pfam02646 1105098000265 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105098000266 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105098000267 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 1105098000268 Walker A motif; other site 1105098000269 ATP binding site [chemical binding]; other site 1105098000270 Walker B motif; other site 1105098000271 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105098000272 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105098000273 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105098000274 Coenzyme A binding pocket [chemical binding]; other site 1105098000275 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 1105098000276 Ligand Binding Site [chemical binding]; other site 1105098000277 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105098000278 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105098000279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098000280 Walker A/P-loop; other site 1105098000281 ATP binding site [chemical binding]; other site 1105098000282 Q-loop/lid; other site 1105098000283 ABC transporter signature motif; other site 1105098000284 Walker B; other site 1105098000285 D-loop; other site 1105098000286 H-loop/switch region; other site 1105098000287 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105098000288 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 1105098000289 putative substrate translocation pore; other site 1105098000290 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105098000291 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105098000292 FtsX-like permease family; Region: FtsX; pfam02687 1105098000293 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105098000294 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105098000295 Walker A/P-loop; other site 1105098000296 ATP binding site [chemical binding]; other site 1105098000297 Q-loop/lid; other site 1105098000298 ABC transporter signature motif; other site 1105098000299 Walker B; other site 1105098000300 D-loop; other site 1105098000301 H-loop/switch region; other site 1105098000302 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105098000303 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105098000304 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 1105098000305 Transporter associated domain; Region: CorC_HlyC; smart01091 1105098000306 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105098000307 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105098000308 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105098000309 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105098000310 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105098000311 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105098000312 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1105098000313 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105098000314 DNA binding residues [nucleotide binding] 1105098000315 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105098000316 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 1105098000317 IHF dimer interface [polypeptide binding]; other site 1105098000318 IHF - DNA interface [nucleotide binding]; other site 1105098000319 potential frameshift: common BLAST hit: gi|67459873|ref|YP_247495.1| patatin-like phospholipase 1105098000320 MULE transposase domain; Region: MULE; pfam10551 1105098000321 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1105098000322 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1105098000323 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1105098000324 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1105098000325 catalytic residues [active] 1105098000326 catalytic nucleophile [active] 1105098000327 Presynaptic Site I dimer interface [polypeptide binding]; other site 1105098000328 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1105098000329 Synaptic Flat tetramer interface [polypeptide binding]; other site 1105098000330 Synaptic Site I dimer interface [polypeptide binding]; other site 1105098000331 potential frameshift: common BLAST hit: gi|157827060|ref|YP_001496124.1| ankyrin repeat-containing protein 1105098000332 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105098000333 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105098000334 potential frameshift: common BLAST hit: gi|157827003|ref|YP_001496067.1| ankyrin repeat-containing protein 1105098000335 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1105098000336 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1105098000337 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1105098000338 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105098000339 putative acyl-acceptor binding pocket; other site 1105098000340 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105098000341 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1105098000342 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105098000343 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 1105098000344 nucleotide binding pocket [chemical binding]; other site 1105098000345 K-X-D-G motif; other site 1105098000346 catalytic site [active] 1105098000347 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105098000348 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105098000349 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 1105098000350 Dimer interface [polypeptide binding]; other site 1105098000351 BRCT sequence motif; other site 1105098000352 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105098000353 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105098000354 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1105098000355 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105098000356 mce related protein; Region: MCE; pfam02470 1105098000357 hypothetical protein; Provisional; Region: PRK06630 1105098000358 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105098000359 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105098000360 active site 1105098000361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105098000362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105098000363 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105098000364 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 1105098000365 CoA-binding site [chemical binding]; other site 1105098000366 ATP-binding [chemical binding]; other site 1105098000367 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105098000368 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 1105098000369 active site 1105098000370 catalytic site [active] 1105098000371 substrate binding site [chemical binding]; other site 1105098000372 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1105098000373 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105098000374 Part of AAA domain; Region: AAA_19; pfam13245 1105098000375 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105098000376 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105098000377 Family description; Region: UvrD_C_2; pfam13538 1105098000378 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105098000379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1105098000380 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1105098000381 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 1105098000382 dimer interface [polypeptide binding]; other site 1105098000383 active site 1105098000384 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105098000385 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1105098000386 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105098000387 FOG: CBS domain [General function prediction only]; Region: COG0517 1105098000388 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 1105098000389 Transporter associated domain; Region: CorC_HlyC; smart01091 1105098000390 metal-binding heat shock protein; Provisional; Region: PRK00016 1105098000391 lipoyl synthase; Provisional; Region: PRK05481 1105098000392 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 1105098000393 FeS/SAM binding site; other site 1105098000394 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105098000395 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 1105098000396 dimer interface [polypeptide binding]; other site 1105098000397 active site 1105098000398 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105098000399 folate binding site [chemical binding]; other site 1105098000400 putative hydrolase; Provisional; Region: PRK11460 1105098000401 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1105098000402 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 1105098000403 putative GSH binding site [chemical binding]; other site 1105098000404 catalytic residues [active] 1105098000405 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105098000406 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105098000407 minor groove reading motif; other site 1105098000408 helix-hairpin-helix signature motif; other site 1105098000409 substrate binding pocket [chemical binding]; other site 1105098000410 active site 1105098000411 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105098000412 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105098000413 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105098000414 putative SAM binding site [chemical binding]; other site 1105098000415 putative homodimer interface [polypeptide binding]; other site 1105098000416 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1105098000417 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105098000418 putative ligand binding site [chemical binding]; other site 1105098000419 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105098000420 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105098000421 tetramer interfaces [polypeptide binding]; other site 1105098000422 binuclear metal-binding site [ion binding]; other site 1105098000423 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105098000424 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105098000425 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105098000426 aspartate kinase; Reviewed; Region: PRK06635 1105098000427 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 1105098000428 putative catalytic residues [active] 1105098000429 putative nucleotide binding site [chemical binding]; other site 1105098000430 putative aspartate binding site [chemical binding]; other site 1105098000431 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105098000432 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1105098000433 putative allosteric regulatory residue; other site 1105098000434 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1105098000435 salt bridge; other site 1105098000436 non-specific DNA binding site [nucleotide binding]; other site 1105098000437 sequence-specific DNA binding site [nucleotide binding]; other site 1105098000438 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 1105098000439 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098000440 putative substrate translocation pore; other site 1105098000441 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105098000442 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105098000443 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105098000444 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105098000445 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105098000446 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105098000447 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105098000448 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 1105098000449 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105098000450 G1 box; other site 1105098000451 GTP/Mg2+ binding site [chemical binding]; other site 1105098000452 Switch I region; other site 1105098000453 G2 box; other site 1105098000454 Switch II region; other site 1105098000455 G3 box; other site 1105098000456 G4 box; other site 1105098000457 G5 box; other site 1105098000458 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105098000459 recombinase A; Provisional; Region: recA; PRK09354 1105098000460 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 1105098000461 hexamer interface [polypeptide binding]; other site 1105098000462 Walker A motif; other site 1105098000463 ATP binding site [chemical binding]; other site 1105098000464 Walker B motif; other site 1105098000465 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105098000466 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105098000467 homotetramer interface [polypeptide binding]; other site 1105098000468 NAD(P) binding site [chemical binding]; other site 1105098000469 homodimer interface [polypeptide binding]; other site 1105098000470 active site 1105098000471 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105098000472 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105098000473 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 1105098000474 dimer interface [polypeptide binding]; other site 1105098000475 active site 1105098000476 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105098000477 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 1105098000478 catalytic site [active] 1105098000479 G-X2-G-X-G-K; other site 1105098000480 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 1105098000481 sequence-specific DNA binding site [nucleotide binding]; other site 1105098000482 salt bridge; other site 1105098000483 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105098000484 rod shape-determining protein MreC; Region: MreC; pfam04085 1105098000485 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105098000486 MreB and similar proteins; Region: MreB_like; cd10225 1105098000487 nucleotide binding site [chemical binding]; other site 1105098000488 Mg binding site [ion binding]; other site 1105098000489 putative protofilament interaction site [polypeptide binding]; other site 1105098000490 RodZ interaction site [polypeptide binding]; other site 1105098000491 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105098000492 Predicted permeases [General function prediction only]; Region: COG0795 1105098000493 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105098000494 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105098000495 ligand binding site [chemical binding]; other site 1105098000496 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1105098000497 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 1105098000498 dimer interface [polypeptide binding]; other site 1105098000499 active site 1105098000500 CoA binding pocket [chemical binding]; other site 1105098000501 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105098000502 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105098000503 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1105098000504 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105098000505 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 1105098000506 P loop; other site 1105098000507 GTP binding site [chemical binding]; other site 1105098000508 DNA polymerase I; Region: pola; TIGR00593 1105098000509 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105098000510 active site 1105098000511 metal binding site 1 [ion binding]; metal-binding site 1105098000512 putative 5' ssDNA interaction site; other site 1105098000513 metal binding site 3; metal-binding site 1105098000514 metal binding site 2 [ion binding]; metal-binding site 1105098000515 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105098000516 putative DNA binding site [nucleotide binding]; other site 1105098000517 putative metal binding site [ion binding]; other site 1105098000518 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105098000519 active site 1105098000520 DNA binding site [nucleotide binding] 1105098000521 catalytic site [active] 1105098000522 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1105098000523 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105098000524 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105098000525 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105098000526 potential frameshift: common BLAST hit: gi|15604610|ref|NP_221128.1| DNA polymerase III subunit alpha 1105098000527 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105098000528 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105098000529 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105098000530 Protein of unknown function; Region: DUF3971; pfam13116 1105098000531 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105098000532 muropeptide transporter; Validated; Region: ampG; cl17669 1105098000533 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 1105098000534 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105098000535 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105098000536 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105098000537 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 1105098000538 dimer interface [polypeptide binding]; other site 1105098000539 active site 1105098000540 motif 1; other site 1105098000541 motif 2; other site 1105098000542 motif 3; other site 1105098000543 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105098000544 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105098000545 Integral membrane protein TerC family; Region: TerC; cl10468 1105098000546 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1105098000547 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105098000548 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 1105098000549 S-adenosylmethionine binding site [chemical binding]; other site 1105098000550 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105098000551 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105098000552 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105098000553 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105098000554 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105098000555 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105098000556 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098000557 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105098000558 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098000559 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105098000560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098000561 Walker A/P-loop; other site 1105098000562 ATP binding site [chemical binding]; other site 1105098000563 Q-loop/lid; other site 1105098000564 ABC transporter signature motif; other site 1105098000565 Walker B; other site 1105098000566 D-loop; other site 1105098000567 H-loop/switch region; other site 1105098000568 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105098000569 4Fe-4S binding domain; Region: Fer4; cl02805 1105098000570 4Fe-4S binding domain; Region: Fer4; pfam00037 1105098000571 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105098000572 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105098000573 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105098000574 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 1105098000575 catalytic loop [active] 1105098000576 iron binding site [ion binding]; other site 1105098000577 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105098000578 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1105098000579 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105098000580 Predicted membrane protein [Function unknown]; Region: COG3671 1105098000581 aconitate hydratase; Validated; Region: PRK09277 1105098000582 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105098000583 substrate binding site [chemical binding]; other site 1105098000584 ligand binding site [chemical binding]; other site 1105098000585 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1105098000586 substrate binding site [chemical binding]; other site 1105098000587 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105098000588 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105098000589 gamma subunit interface [polypeptide binding]; other site 1105098000590 epsilon subunit interface [polypeptide binding]; other site 1105098000591 LBP interface [polypeptide binding]; other site 1105098000592 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105098000593 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105098000594 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 1105098000595 alpha subunit interaction interface [polypeptide binding]; other site 1105098000596 Walker A motif; other site 1105098000597 ATP binding site [chemical binding]; other site 1105098000598 Walker B motif; other site 1105098000599 inhibitor binding site; inhibition site 1105098000600 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105098000601 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105098000602 core domain interface [polypeptide binding]; other site 1105098000603 delta subunit interface [polypeptide binding]; other site 1105098000604 epsilon subunit interface [polypeptide binding]; other site 1105098000605 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105098000606 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105098000607 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 1105098000608 beta subunit interaction interface [polypeptide binding]; other site 1105098000609 Walker A motif; other site 1105098000610 ATP binding site [chemical binding]; other site 1105098000611 Walker B motif; other site 1105098000612 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105098000613 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105098000614 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105098000615 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105098000616 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105098000617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105098000618 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105098000619 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105098000620 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105098000621 dimerization interface [polypeptide binding]; other site 1105098000622 DPS ferroxidase diiron center [ion binding]; other site 1105098000623 ion pore; other site 1105098000624 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105098000625 Transglycosylase; Region: Transgly; pfam00912 1105098000626 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105098000627 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105098000628 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105098000629 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 1105098000630 FeS/SAM binding site; other site 1105098000631 TRAM domain; Region: TRAM; pfam01938 1105098000632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105098000633 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105098000634 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105098000635 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105098000636 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105098000637 TrkA-N domain; Region: TrkA_N; pfam02254 1105098000638 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105098000639 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105098000640 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 1105098000641 rRNA binding site [nucleotide binding]; other site 1105098000642 predicted 30S ribosome binding site; other site 1105098000643 Maf-like protein; Region: Maf; pfam02545 1105098000644 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1105098000645 active site 1105098000646 dimer interface [polypeptide binding]; other site 1105098000647 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105098000648 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105098000649 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 1105098000650 active site 1105098000651 DNA binding site [nucleotide binding] 1105098000652 Int/Topo IB signature motif; other site 1105098000653 Phasin protein; Region: Phasin_2; pfam09361 1105098000654 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105098000655 PLD-like domain; Region: PLDc_2; pfam13091 1105098000656 putative active site [active] 1105098000657 catalytic site [active] 1105098000658 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1105098000659 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105098000660 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105098000661 periplasmic folding chaperone; Provisional; Region: PRK10788 1105098000662 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105098000663 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105098000664 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105098000665 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105098000666 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 1105098000667 active site 1105098000668 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105098000669 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1105098000670 Mg++ binding site [ion binding]; other site 1105098000671 putative catalytic motif [active] 1105098000672 putative substrate binding site [chemical binding]; other site 1105098000673 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105098000674 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105098000675 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105098000676 Ferredoxin [Energy production and conversion]; Region: COG1146 1105098000677 4Fe-4S binding domain; Region: Fer4; cl02805 1105098000678 heme exporter protein CcmC; Region: ccmC; TIGR01191 1105098000679 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 1105098000680 nucleoside/Zn binding site; other site 1105098000681 dimer interface [polypeptide binding]; other site 1105098000682 catalytic motif [active] 1105098000683 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105098000684 Cation efflux family; Region: Cation_efflux; cl00316 1105098000685 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105098000686 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105098000687 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105098000688 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105098000689 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105098000690 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105098000691 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105098000692 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105098000693 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 1105098000694 dimer interface [polypeptide binding]; other site 1105098000695 ssDNA binding site [nucleotide binding]; other site 1105098000696 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105098000697 hypothetical protein; Reviewed; Region: PRK01530 1105098000698 heat shock protein 90; Provisional; Region: PRK05218 1105098000699 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 1105098000700 ATP binding site [chemical binding]; other site 1105098000701 Mg2+ binding site [ion binding]; other site 1105098000702 G-X-G motif; other site 1105098000703 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105098000704 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 1105098000705 substrate-cofactor binding pocket; other site 1105098000706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105098000707 catalytic residue [active] 1105098000708 trigger factor; Provisional; Region: tig; PRK01490 1105098000709 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105098000710 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105098000711 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1105098000712 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105098000713 Obg GTPase; Region: Obg; cd01898 1105098000714 G1 box; other site 1105098000715 GTP/Mg2+ binding site [chemical binding]; other site 1105098000716 Switch I region; other site 1105098000717 G2 box; other site 1105098000718 G3 box; other site 1105098000719 Switch II region; other site 1105098000720 G4 box; other site 1105098000721 G5 box; other site 1105098000722 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 1105098000723 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105098000724 dimer interface [polypeptide binding]; other site 1105098000725 active site 1105098000726 citrylCoA binding site [chemical binding]; other site 1105098000727 NADH binding [chemical binding]; other site 1105098000728 cationic pore residues; other site 1105098000729 oxalacetate/citrate binding site [chemical binding]; other site 1105098000730 coenzyme A binding site [chemical binding]; other site 1105098000731 catalytic triad [active] 1105098000732 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105098000733 Fe-S cluster binding site [ion binding]; other site 1105098000734 active site 1105098000735 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105098000736 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 1105098000737 RNA binding surface [nucleotide binding]; other site 1105098000738 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105098000739 active site 1105098000740 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105098000741 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 1105098000742 S-adenosylmethionine binding site [chemical binding]; other site 1105098000743 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105098000744 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105098000745 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105098000746 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105098000747 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105098000748 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105098000749 motif 1; other site 1105098000750 dimer interface [polypeptide binding]; other site 1105098000751 active site 1105098000752 motif 2; other site 1105098000753 motif 3; other site 1105098000754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105098000755 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 1105098000756 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098000757 putative substrate translocation pore; other site 1105098000758 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105098000759 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 1105098000760 motif 1; other site 1105098000761 active site 1105098000762 motif 2; other site 1105098000763 motif 3; other site 1105098000764 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105098000765 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105098000766 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105098000767 dimerization interface 3.5A [polypeptide binding]; other site 1105098000768 active site 1105098000769 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105098000770 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105098000771 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105098000772 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1105098000773 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105098000774 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105098000775 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 1105098000776 DNA binding residues [nucleotide binding] 1105098000777 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105098000778 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105098000779 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105098000780 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 1105098000781 active site 1105098000782 metal binding site [ion binding]; metal-binding site 1105098000783 interdomain interaction site; other site 1105098000784 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105098000785 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105098000786 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105098000787 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105098000788 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105098000789 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105098000790 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105098000791 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105098000792 ligand binding site [chemical binding]; other site 1105098000793 homodimer interface [polypeptide binding]; other site 1105098000794 NAD(P) binding site [chemical binding]; other site 1105098000795 trimer interface B [polypeptide binding]; other site 1105098000796 trimer interface A [polypeptide binding]; other site 1105098000797 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1105098000798 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105098000799 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105098000800 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 1105098000801 Walker A motif; other site 1105098000802 ATP binding site [chemical binding]; other site 1105098000803 Walker B motif; other site 1105098000804 arginine finger; other site 1105098000805 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105098000806 hypothetical protein; Validated; Region: PRK00153 1105098000807 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105098000808 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105098000809 catalytic motif [active] 1105098000810 Catalytic residue [active] 1105098000811 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105098000812 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098000813 Walker A/P-loop; other site 1105098000814 ATP binding site [chemical binding]; other site 1105098000815 Q-loop/lid; other site 1105098000816 ABC transporter signature motif; other site 1105098000817 Walker B; other site 1105098000818 D-loop; other site 1105098000819 H-loop/switch region; other site 1105098000820 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105098000821 putative hydrolase; Provisional; Region: PRK02113 1105098000822 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 1105098000823 active site 1105098000824 Predicted permeases [General function prediction only]; Region: COG0795 1105098000825 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105098000826 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105098000827 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 1105098000828 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105098000829 metal binding site [ion binding]; metal-binding site 1105098000830 dimer interface [polypeptide binding]; other site 1105098000831 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105098000832 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; cl00630 1105098000833 putative active site [active] 1105098000834 lipoate-protein ligase B; Provisional; Region: PRK14347 1105098000835 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105098000836 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105098000837 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105098000838 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 1105098000839 ATP binding site [chemical binding]; other site 1105098000840 Mg2+ binding site [ion binding]; other site 1105098000841 G-X-G motif; other site 1105098000842 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1105098000843 ATP binding site [chemical binding]; other site 1105098000844 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105098000845 Zinc-finger domain; Region: zf-CHCC; cl01821 1105098000846 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 1105098000847 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098000848 putative substrate translocation pore; other site 1105098000849 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105098000850 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105098000851 TIGR00701 family protein; Region: TIGR00701 1105098000852 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105098000853 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 1105098000854 C-terminal domain interface [polypeptide binding]; other site 1105098000855 active site 1105098000856 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 1105098000857 active site 1105098000858 N-terminal domain interface [polypeptide binding]; other site 1105098000859 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 1105098000860 substrate binding site [chemical binding]; other site 1105098000861 active site 1105098000862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105098000863 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 1105098000864 catalytic residues [active] 1105098000865 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105098000866 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105098000867 Walker A/P-loop; other site 1105098000868 ATP binding site [chemical binding]; other site 1105098000869 Q-loop/lid; other site 1105098000870 ABC transporter signature motif; other site 1105098000871 Walker B; other site 1105098000872 D-loop; other site 1105098000873 H-loop/switch region; other site 1105098000874 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105098000875 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1105098000876 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105098000877 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 1105098000878 FAD binding pocket [chemical binding]; other site 1105098000879 FAD binding motif [chemical binding]; other site 1105098000880 phosphate binding motif [ion binding]; other site 1105098000881 beta-alpha-beta structure motif; other site 1105098000882 NAD binding pocket [chemical binding]; other site 1105098000883 Iron coordination center [ion binding]; other site 1105098000884 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105098000885 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 1105098000886 active site 1105098000887 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 1105098000888 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1105098000889 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105098000890 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 1105098000891 trimer interface [polypeptide binding]; other site 1105098000892 active site 1105098000893 UDP-GlcNAc binding site [chemical binding]; other site 1105098000894 lipid binding site [chemical binding]; lipid-binding site 1105098000895 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105098000896 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 1105098000897 FMN binding site [chemical binding]; other site 1105098000898 active site 1105098000899 catalytic residues [active] 1105098000900 substrate binding site [chemical binding]; other site 1105098000901 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105098000902 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105098000903 NodB motif; other site 1105098000904 putative active site [active] 1105098000905 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105098000906 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105098000907 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 1105098000908 putative ligand binding site [chemical binding]; other site 1105098000909 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105098000910 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105098000911 active site 1105098000912 NTP binding site [chemical binding]; other site 1105098000913 metal binding triad [ion binding]; metal-binding site 1105098000914 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105098000915 potential frameshift: common BLAST hit: gi|67458414|ref|YP_246038.1| cell surface antigen Sca1 1105098000916 potential frameshift: common BLAST hit: gi|157964084|ref|YP_001498908.1| cell surface antigen Sca1 1105098000917 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105098000918 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105098000919 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105098000920 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105098000921 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105098000922 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105098000923 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105098000924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105098000925 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1105098000926 Thioredoxin; Region: Thioredoxin_4; pfam13462 1105098000927 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105098000928 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105098000929 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 1105098000930 S-adenosylmethionine binding site [chemical binding]; other site 1105098000931 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105098000932 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105098000933 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105098000934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098000935 Walker A/P-loop; other site 1105098000936 ATP binding site [chemical binding]; other site 1105098000937 Q-loop/lid; other site 1105098000938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098000939 ABC transporter signature motif; other site 1105098000940 Walker B; other site 1105098000941 D-loop; other site 1105098000942 H-loop/switch region; other site 1105098000943 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105098000944 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1105098000945 Cu(I) binding site [ion binding]; other site 1105098000946 Putative transcriptional regulator [Transcription]; Region: COG1678 1105098000947 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105098000948 Colicin V production protein; Region: Colicin_V; pfam02674 1105098000949 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105098000950 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1105098000951 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105098000952 NAD(P) binding site [chemical binding]; other site 1105098000953 homotetramer interface [polypeptide binding]; other site 1105098000954 homodimer interface [polypeptide binding]; other site 1105098000955 active site 1105098000956 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105098000957 Clp amino terminal domain; Region: Clp_N; pfam02861 1105098000958 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 1105098000959 Walker A motif; other site 1105098000960 ATP binding site [chemical binding]; other site 1105098000961 Walker B motif; other site 1105098000962 arginine finger; other site 1105098000963 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 1105098000964 Walker A motif; other site 1105098000965 ATP binding site [chemical binding]; other site 1105098000966 Walker B motif; other site 1105098000967 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105098000968 UGMP family protein; Validated; Region: PRK09604 1105098000969 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105098000970 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105098000971 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1105098000972 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105098000973 Di-iron ligands [ion binding]; other site 1105098000974 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 1105098000975 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105098000976 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105098000977 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105098000978 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105098000979 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105098000980 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105098000981 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 1105098000982 Ligand Binding Site [chemical binding]; other site 1105098000983 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105098000984 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105098000985 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 1105098000986 Walker A motif; other site 1105098000987 ATP binding site [chemical binding]; other site 1105098000988 Walker B motif; other site 1105098000989 arginine finger; other site 1105098000990 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105098000991 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105098000992 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105098000993 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105098000994 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105098000995 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105098000996 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105098000997 membrane protein insertase; Provisional; Region: PRK01318 1105098000998 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105098000999 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105098001000 potential frameshift: common BLAST hit: gi|15603932|ref|NP_220447.1| ADP,ATP carrier protein 1105098001001 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105098001002 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 1105098001003 putative substrate translocation pore; other site 1105098001004 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 1105098001005 active site 1105098001006 multimer interface [polypeptide binding]; other site 1105098001007 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105098001008 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105098001009 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105098001010 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1105098001011 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 1105098001012 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105098001013 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1105098001014 P loop; other site 1105098001015 Nucleotide binding site [chemical binding]; other site 1105098001016 DTAP/Switch II; other site 1105098001017 Switch I; other site 1105098001018 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1105098001019 Magnesium ion binding site [ion binding]; other site 1105098001020 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1105098001021 ParB-like nuclease domain; Region: ParBc; pfam02195 1105098001022 KorB domain; Region: KorB; pfam08535 1105098001023 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105098001024 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105098001025 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105098001026 ABC transporter; Region: ABC_tran_2; pfam12848 1105098001027 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105098001028 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105098001029 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105098001030 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105098001031 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105098001032 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105098001033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105098001034 Zn2+ binding site [ion binding]; other site 1105098001035 Mg2+ binding site [ion binding]; other site 1105098001036 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105098001037 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105098001038 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105098001039 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105098001040 active site 1105098001041 HIGH motif; other site 1105098001042 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105098001043 KMSK motif region; other site 1105098001044 tRNA binding surface [nucleotide binding]; other site 1105098001045 DALR anticodon binding domain; Region: DALR_1; smart00836 1105098001046 anticodon binding site; other site 1105098001047 Sporulation related domain; Region: SPOR; pfam05036 1105098001048 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1105098001049 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 1105098001050 CAP-like domain; other site 1105098001051 active site 1105098001052 primary dimer interface [polypeptide binding]; other site 1105098001053 Gram-negative porin; Region: Porin_4; pfam13609 1105098001054 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105098001055 trimer interface [polypeptide binding]; other site 1105098001056 active site 1105098001057 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 1105098001058 SecA binding site; other site 1105098001059 Preprotein binding site; other site 1105098001060 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105098001061 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 1105098001062 active site 1105098001063 phosphorylation site [posttranslational modification] 1105098001064 intermolecular recognition site; other site 1105098001065 dimerization interface [polypeptide binding]; other site 1105098001066 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 1105098001067 DNA binding site [nucleotide binding] 1105098001068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105098001069 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105098001070 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105098001071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1105098001072 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105098001073 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105098001074 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105098001075 EamA-like transporter family; Region: EamA; pfam00892 1105098001076 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105098001077 EamA-like transporter family; Region: EamA; pfam00892 1105098001078 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 1105098001079 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098001080 putative substrate translocation pore; other site 1105098001081 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105098001082 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105098001083 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105098001084 active site 1105098001085 HIGH motif; other site 1105098001086 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105098001087 KMSKS motif; other site 1105098001088 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105098001089 tRNA binding surface [nucleotide binding]; other site 1105098001090 anticodon binding site; other site 1105098001091 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 1105098001092 rRNA interaction site [nucleotide binding]; other site 1105098001093 S8 interaction site; other site 1105098001094 putative laminin-1 binding site; other site 1105098001095 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105098001096 UBA/TS-N domain; Region: UBA; pfam00627 1105098001097 Elongation factor TS; Region: EF_TS; pfam00889 1105098001098 Elongation factor TS; Region: EF_TS; pfam00889 1105098001099 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105098001100 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105098001101 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105098001102 putative acyl-acceptor binding pocket; other site 1105098001103 aspartate aminotransferase; Provisional; Region: PRK05764 1105098001104 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 1105098001105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105098001106 homodimer interface [polypeptide binding]; other site 1105098001107 catalytic residue [active] 1105098001108 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105098001109 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1105098001110 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105098001111 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105098001112 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105098001113 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105098001114 active site 1105098001115 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105098001116 dimer interface [polypeptide binding]; other site 1105098001117 substrate binding site [chemical binding]; other site 1105098001118 catalytic residues [active] 1105098001119 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105098001120 Permease; Region: Permease; pfam02405 1105098001121 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105098001122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098001123 Walker A/P-loop; other site 1105098001124 ATP binding site [chemical binding]; other site 1105098001125 Q-loop/lid; other site 1105098001126 ABC transporter signature motif; other site 1105098001127 Walker B; other site 1105098001128 D-loop; other site 1105098001129 H-loop/switch region; other site 1105098001130 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105098001131 50S ribosomal protein L31; Provisional; Region: PRK01397 1105098001132 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105098001133 G1 box; other site 1105098001134 GTP/Mg2+ binding site [chemical binding]; other site 1105098001135 Switch I region; other site 1105098001136 G2 box; other site 1105098001137 G3 box; other site 1105098001138 Switch II region; other site 1105098001139 G4 box; other site 1105098001140 G5 box; other site 1105098001141 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105098001142 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105098001143 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1105098001144 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105098001145 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098001146 Walker A/P-loop; other site 1105098001147 ATP binding site [chemical binding]; other site 1105098001148 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105098001149 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105098001150 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105098001151 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105098001152 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105098001153 phosphate acetyltransferase; Provisional; Region: PRK11890 1105098001154 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1105098001155 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1105098001156 propionate/acetate kinase; Provisional; Region: PRK12379 1105098001157 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105098001158 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105098001159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1105098001160 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105098001161 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1105098001162 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105098001163 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105098001164 SLBB domain; Region: SLBB; pfam10531 1105098001165 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105098001166 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105098001167 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 1105098001168 Catalytic site [active] 1105098001169 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 1105098001170 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105098001171 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 1105098001172 dimerization interface [polypeptide binding]; other site 1105098001173 active site 1105098001174 metal binding site [ion binding]; metal-binding site 1105098001175 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 1105098001176 dsRNA binding site [nucleotide binding]; other site 1105098001177 GTPase [General function prediction only]; Region: Era; COG1159 1105098001178 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105098001179 G1 box; other site 1105098001180 GTP/Mg2+ binding site [chemical binding]; other site 1105098001181 Switch I region; other site 1105098001182 G2 box; other site 1105098001183 Switch II region; other site 1105098001184 G3 box; other site 1105098001185 G4 box; other site 1105098001186 G5 box; other site 1105098001187 KH domain; Region: KH_2; pfam07650 1105098001188 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 1105098001189 active site 1105098001190 putative DNA-binding cleft [nucleotide binding]; other site 1105098001191 dimer interface [polypeptide binding]; other site 1105098001192 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105098001193 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105098001194 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1105098001195 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 1105098001196 Walker A motif; other site 1105098001197 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 1105098001198 HflK protein; Region: hflK; TIGR01933 1105098001199 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105098001200 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 1105098001201 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105098001202 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105098001203 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 1105098001204 protein binding site [polypeptide binding]; other site 1105098001205 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 1105098001206 protein binding site [polypeptide binding]; other site 1105098001207 hypothetical protein; Validated; Region: PRK01415 1105098001208 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105098001209 active site residue [active] 1105098001210 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1105098001211 Iron-sulfur protein interface; other site 1105098001212 proximal quinone binding site [chemical binding]; other site 1105098001213 SdhD (CybS) interface [polypeptide binding]; other site 1105098001214 proximal heme binding site [chemical binding]; other site 1105098001215 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1105098001216 putative SdhC subunit interface [polypeptide binding]; other site 1105098001217 putative proximal heme binding site [chemical binding]; other site 1105098001218 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105098001219 putative proximal quinone binding site; other site 1105098001220 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105098001221 L-aspartate oxidase; Provisional; Region: PRK06175 1105098001222 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105098001223 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105098001224 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 1105098001225 dimer interface [polypeptide binding]; other site 1105098001226 conserved gate region; other site 1105098001227 putative PBP binding loops; other site 1105098001228 ABC-ATPase subunit interface; other site 1105098001229 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 1105098001230 S17 interaction site [polypeptide binding]; other site 1105098001231 S8 interaction site; other site 1105098001232 16S rRNA interaction site [nucleotide binding]; other site 1105098001233 streptomycin interaction site [chemical binding]; other site 1105098001234 23S rRNA interaction site [nucleotide binding]; other site 1105098001235 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105098001236 30S ribosomal protein S7; Validated; Region: PRK05302 1105098001237 elongation factor G; Reviewed; Region: PRK00007 1105098001238 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105098001239 G1 box; other site 1105098001240 putative GEF interaction site [polypeptide binding]; other site 1105098001241 GTP/Mg2+ binding site [chemical binding]; other site 1105098001242 Switch I region; other site 1105098001243 G2 box; other site 1105098001244 G3 box; other site 1105098001245 Switch II region; other site 1105098001246 G4 box; other site 1105098001247 G5 box; other site 1105098001248 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 1105098001249 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 1105098001250 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 1105098001251 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105098001252 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105098001253 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1105098001254 putative homodimer interface [polypeptide binding]; other site 1105098001255 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105098001256 heterodimer interface [polypeptide binding]; other site 1105098001257 homodimer interface [polypeptide binding]; other site 1105098001258 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105098001259 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 1105098001260 23S rRNA interface [nucleotide binding]; other site 1105098001261 putative thiostrepton binding site; other site 1105098001262 L7/L12 interface [polypeptide binding]; other site 1105098001263 L25 interface [polypeptide binding]; other site 1105098001264 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 1105098001265 mRNA/rRNA interface [nucleotide binding]; other site 1105098001266 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 1105098001267 23S rRNA interface [nucleotide binding]; other site 1105098001268 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105098001269 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 1105098001270 core dimer interface [polypeptide binding]; other site 1105098001271 peripheral dimer interface [polypeptide binding]; other site 1105098001272 L10 interface [polypeptide binding]; other site 1105098001273 L11 interface [polypeptide binding]; other site 1105098001274 putative EF-Tu interaction site [polypeptide binding]; other site 1105098001275 putative EF-G interaction site [polypeptide binding]; other site 1105098001276 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105098001277 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 1105098001278 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105098001279 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 1105098001280 RPB11 interaction site [polypeptide binding]; other site 1105098001281 RPB12 interaction site [polypeptide binding]; other site 1105098001282 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 1105098001283 RPB3 interaction site [polypeptide binding]; other site 1105098001284 RPB1 interaction site [polypeptide binding]; other site 1105098001285 RPB11 interaction site [polypeptide binding]; other site 1105098001286 RPB10 interaction site [polypeptide binding]; other site 1105098001287 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105098001288 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105098001289 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105098001290 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105098001291 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105098001292 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105098001293 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105098001294 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 1105098001295 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105098001296 DNA binding site [nucleotide binding] 1105098001297 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105098001298 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105098001299 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 1105098001300 interface (dimer of trimers) [polypeptide binding]; other site 1105098001301 Substrate-binding/catalytic site; other site 1105098001302 Zn-binding sites [ion binding]; other site 1105098001303 ATPase MipZ; Region: MipZ; pfam09140 1105098001304 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1105098001305 P-loop; other site 1105098001306 Magnesium ion binding site [ion binding]; other site 1105098001307 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105098001308 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 1105098001309 dimer interface [polypeptide binding]; other site 1105098001310 anticodon binding site; other site 1105098001311 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 1105098001312 homodimer interface [polypeptide binding]; other site 1105098001313 motif 1; other site 1105098001314 active site 1105098001315 motif 2; other site 1105098001316 GAD domain; Region: GAD; pfam02938 1105098001317 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 1105098001318 active site 1105098001319 motif 3; other site 1105098001320 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105098001321 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105098001322 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105098001323 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105098001324 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105098001325 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1105098001326 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105098001327 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 1105098001328 substrate binding pocket [chemical binding]; other site 1105098001329 membrane-bound complex binding site; other site 1105098001330 hinge residues; other site 1105098001331 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105098001332 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105098001333 GatB domain; Region: GatB_Yqey; smart00845 1105098001334 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105098001335 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105098001336 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1105098001337 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105098001338 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 1105098001339 hinge region; other site 1105098001340 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 1105098001341 putative nucleotide binding site [chemical binding]; other site 1105098001342 uridine monophosphate binding site [chemical binding]; other site 1105098001343 homohexameric interface [polypeptide binding]; other site 1105098001344 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105098001345 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105098001346 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 1105098001347 putative substrate translocation pore; other site 1105098001348 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 1105098001349 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105098001350 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105098001351 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105098001352 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105098001353 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105098001354 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105098001355 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105098001356 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105098001357 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105098001358 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 1105098001359 active site 1105098001360 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 1105098001361 protein binding site [polypeptide binding]; other site 1105098001362 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1105098001363 putative substrate binding region [chemical binding]; other site 1105098001364 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 1105098001365 putative RNA binding site [nucleotide binding]; other site 1105098001366 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105098001367 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 1105098001368 S-adenosylmethionine binding site [chemical binding]; other site 1105098001369 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1105098001370 nucleophilic elbow; other site 1105098001371 catalytic triad; other site 1105098001372 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105098001373 putative coenzyme Q binding site [chemical binding]; other site 1105098001374 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105098001375 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105098001376 RNA methyltransferase, RsmE family; Region: TIGR00046 1105098001377 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1105098001378 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105098001379 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105098001380 Protein export membrane protein; Region: SecD_SecF; cl14618 1105098001381 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 1105098001382 IHF dimer interface [polypeptide binding]; other site 1105098001383 IHF - DNA interface [nucleotide binding]; other site 1105098001384 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105098001385 signal recognition particle protein; Provisional; Region: PRK10867 1105098001386 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105098001387 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 1105098001388 P loop; other site 1105098001389 GTP binding site [chemical binding]; other site 1105098001390 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105098001391 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105098001392 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105098001393 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105098001394 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 1105098001395 FeS/SAM binding site; other site 1105098001396 HemN C-terminal domain; Region: HemN_C; pfam06969 1105098001397 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105098001398 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105098001399 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105098001400 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105098001401 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1105098001402 active site 1105098001403 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105098001404 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 1105098001405 E3 interaction surface; other site 1105098001406 lipoyl attachment site [posttranslational modification]; other site 1105098001407 e3 binding domain; Region: E3_binding; pfam02817 1105098001408 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105098001409 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105098001410 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 1105098001411 TPP-binding site [chemical binding]; other site 1105098001412 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105098001413 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1105098001414 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1105098001415 active site 1105098001416 Zn binding site [ion binding]; other site 1105098001417 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105098001418 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105098001419 Walker A/P-loop; other site 1105098001420 ATP binding site [chemical binding]; other site 1105098001421 Q-loop/lid; other site 1105098001422 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105098001423 ABC transporter signature motif; other site 1105098001424 Walker B; other site 1105098001425 D-loop; other site 1105098001426 H-loop/switch region; other site 1105098001427 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105098001428 chaperone protein DnaJ; Provisional; Region: PRK14300 1105098001429 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 1105098001430 HSP70 interaction site [polypeptide binding]; other site 1105098001431 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105098001432 substrate binding site [polypeptide binding]; other site 1105098001433 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105098001434 Zn binding sites [ion binding]; other site 1105098001435 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105098001436 dimer interface [polypeptide binding]; other site 1105098001437 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105098001438 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1105098001439 nucleotide binding site [chemical binding]; other site 1105098001440 NEF interaction site [polypeptide binding]; other site 1105098001441 SBD interface [polypeptide binding]; other site 1105098001442 potential frameshift: common BLAST hit: gi|51473386|ref|YP_067143.1| serine protease 1105098001443 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105098001444 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105098001445 diiron binding motif [ion binding]; other site 1105098001446 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1105098001447 Subunit III/VIIa interface [polypeptide binding]; other site 1105098001448 Phospholipid binding site [chemical binding]; other site 1105098001449 Subunit I/III interface [polypeptide binding]; other site 1105098001450 Subunit III/VIb interface [polypeptide binding]; other site 1105098001451 Subunit III/VIa interface; other site 1105098001452 Subunit III/Vb interface [polypeptide binding]; other site 1105098001453 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105098001454 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105098001455 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 1105098001456 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 1105098001457 trimer interface [polypeptide binding]; other site 1105098001458 active site 1105098001459 substrate binding site [chemical binding]; other site 1105098001460 CoA binding site [chemical binding]; other site 1105098001461 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1105098001462 Transglycosylase; Region: Transgly; pfam00912 1105098001463 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105098001464 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1105098001465 Transglycosylase; Region: Transgly; cl17702 1105098001466 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 1105098001467 Ligand Binding Site [chemical binding]; other site 1105098001468 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105098001469 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105098001470 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105098001471 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 1105098001472 catalytic loop [active] 1105098001473 iron binding site [ion binding]; other site 1105098001474 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105098001475 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105098001476 nucleotide binding site [chemical binding]; other site 1105098001477 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105098001478 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 1105098001479 HSP70 interaction site [polypeptide binding]; other site 1105098001480 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105098001481 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105098001482 active site 1105098001483 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105098001484 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 1105098001485 ATP binding site [chemical binding]; other site 1105098001486 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 1105098001487 nucleotide binding region [chemical binding]; other site 1105098001488 ATP-binding site [chemical binding]; other site 1105098001489 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105098001490 UvrB/uvrC motif; Region: UVR; pfam02151 1105098001491 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1105098001492 GSH binding site [chemical binding]; other site 1105098001493 catalytic residues [active] 1105098001494 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105098001495 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105098001496 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1105098001497 Walker A/P-loop; other site 1105098001498 ATP binding site [chemical binding]; other site 1105098001499 Q-loop/lid; other site 1105098001500 ABC transporter signature motif; other site 1105098001501 Walker B; other site 1105098001502 D-loop; other site 1105098001503 H-loop/switch region; other site 1105098001504 DNA gyrase subunit A; Validated; Region: PRK05560 1105098001505 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 1105098001506 CAP-like domain; other site 1105098001507 active site 1105098001508 primary dimer interface [polypeptide binding]; other site 1105098001509 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105098001510 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105098001511 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105098001512 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105098001513 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1105098001514 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 1105098001515 active site 1105098001516 catalytic residues [active] 1105098001517 metal binding site [ion binding]; metal-binding site 1105098001518 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105098001519 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105098001520 putative active site [active] 1105098001521 substrate binding site [chemical binding]; other site 1105098001522 putative cosubstrate binding site; other site 1105098001523 catalytic site [active] 1105098001524 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105098001525 substrate binding site [chemical binding]; other site 1105098001526 Predicted ATPase [General function prediction only]; Region: COG1485 1105098001527 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1105098001528 Walker A motif; other site 1105098001529 ATP binding site [chemical binding]; other site 1105098001530 Walker B motif; other site 1105098001531 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105098001532 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105098001533 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105098001534 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105098001535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098001536 Walker A/P-loop; other site 1105098001537 ATP binding site [chemical binding]; other site 1105098001538 Q-loop/lid; other site 1105098001539 ABC transporter signature motif; other site 1105098001540 Walker B; other site 1105098001541 D-loop; other site 1105098001542 H-loop/switch region; other site 1105098001543 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105098001544 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105098001545 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105098001546 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105098001547 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105098001548 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105098001549 putative metal binding site; other site 1105098001550 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105098001551 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105098001552 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105098001553 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105098001554 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105098001555 ATP binding site [chemical binding]; other site 1105098001556 active site 1105098001557 substrate binding site [chemical binding]; other site 1105098001558 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105098001559 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 1105098001560 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105098001561 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 1105098001562 active site 1105098001563 dimer interface [polypeptide binding]; other site 1105098001564 motif 1; other site 1105098001565 motif 2; other site 1105098001566 motif 3; other site 1105098001567 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 1105098001568 anticodon binding site; other site 1105098001569 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105098001570 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105098001571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105098001572 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105098001573 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1105098001574 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105098001575 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 1105098001576 ATP binding site [chemical binding]; other site 1105098001577 Mg2+ binding site [ion binding]; other site 1105098001578 G-X-G motif; other site 1105098001579 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 1105098001580 anchoring element; other site 1105098001581 dimer interface [polypeptide binding]; other site 1105098001582 ATP binding site [chemical binding]; other site 1105098001583 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1105098001584 active site 1105098001585 metal binding site [ion binding]; metal-binding site 1105098001586 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105098001587 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105098001588 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105098001589 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 1105098001590 protein binding site [polypeptide binding]; other site 1105098001591 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105098001592 Catalytic dyad [active] 1105098001593 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 1105098001594 dimer interface [polypeptide binding]; other site 1105098001595 phosphorylation site [posttranslational modification] 1105098001596 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 1105098001597 ATP binding site [chemical binding]; other site 1105098001598 Mg2+ binding site [ion binding]; other site 1105098001599 G-X-G motif; other site 1105098001600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1105098001601 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105098001602 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105098001603 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105098001604 Trp docking motif [polypeptide binding]; other site 1105098001605 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 1105098001606 23S rRNA interface [nucleotide binding]; other site 1105098001607 L3 interface [polypeptide binding]; other site 1105098001608 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105098001609 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 1105098001610 putative active site [active] 1105098001611 Ap4A binding site [chemical binding]; other site 1105098001612 nudix motif; other site 1105098001613 putative metal binding site [ion binding]; other site 1105098001614 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105098001615 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 1105098001616 active site 1105098001617 phosphorylation site [posttranslational modification] 1105098001618 intermolecular recognition site; other site 1105098001619 dimerization interface [polypeptide binding]; other site 1105098001620 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 1105098001621 active site 1105098001622 phosphorylation site [posttranslational modification] 1105098001623 intermolecular recognition site; other site 1105098001624 dimerization interface [polypeptide binding]; other site 1105098001625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105098001626 metal binding site [ion binding]; metal-binding site 1105098001627 active site 1105098001628 I-site; other site 1105098001629 elongation factor P; Validated; Region: PRK00529 1105098001630 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105098001631 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 1105098001632 RNA binding site [nucleotide binding]; other site 1105098001633 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 1105098001634 RNA binding site [nucleotide binding]; other site 1105098001635 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105098001636 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1105098001637 active site 1105098001638 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105098001639 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105098001640 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105098001641 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105098001642 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1105098001643 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105098001644 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105098001645 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105098001646 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1105098001647 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105098001648 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105098001649 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105098001650 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105098001651 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105098001652 FAD binding domain; Region: FAD_binding_4; pfam01565 1105098001653 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105098001654 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105098001655 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105098001656 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105098001657 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105098001658 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105098001659 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105098001660 cell division protein FtsA; Region: ftsA; TIGR01174 1105098001661 Cell division protein FtsA; Region: FtsA; smart00842 1105098001662 Cell division protein FtsA; Region: FtsA; pfam14450 1105098001663 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105098001664 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105098001665 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1105098001666 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105098001667 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 1105098001668 RNA binding site [nucleotide binding]; other site 1105098001669 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 1105098001670 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1105098001671 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105098001672 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105098001673 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105098001674 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 1105098001675 RNA binding surface [nucleotide binding]; other site 1105098001676 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105098001677 active site 1105098001678 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1105098001679 Beta-lactamase; Region: Beta-lactamase; pfam00144 1105098001680 potential frameshift: common BLAST hit: gi|15604130|ref|NP_220645.1| exodeoxyribonuclease III 1105098001681 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105098001682 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1105098001683 tetramer interface [polypeptide binding]; other site 1105098001684 TPP-binding site [chemical binding]; other site 1105098001685 heterodimer interface [polypeptide binding]; other site 1105098001686 phosphorylation loop region [posttranslational modification] 1105098001687 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105098001688 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1105098001689 alpha subunit interface [polypeptide binding]; other site 1105098001690 TPP binding site [chemical binding]; other site 1105098001691 heterodimer interface [polypeptide binding]; other site 1105098001692 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105098001693 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105098001694 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105098001695 G1 box; other site 1105098001696 putative GEF interaction site [polypeptide binding]; other site 1105098001697 GTP/Mg2+ binding site [chemical binding]; other site 1105098001698 Switch I region; other site 1105098001699 G2 box; other site 1105098001700 G3 box; other site 1105098001701 Switch II region; other site 1105098001702 G4 box; other site 1105098001703 G5 box; other site 1105098001704 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 1105098001705 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 1105098001706 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1105098001707 isocitrate dehydrogenase; Validated; Region: PRK09222 1105098001708 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1105098001709 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 1105098001710 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105098001711 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105098001712 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105098001713 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105098001714 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105098001715 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105098001716 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1105098001717 [2Fe-2S] cluster binding site [ion binding]; other site 1105098001718 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1105098001719 Qi binding site; other site 1105098001720 intrachain domain interface; other site 1105098001721 interchain domain interface [polypeptide binding]; other site 1105098001722 cytochrome b; Provisional; Region: CYTB; MTH00119 1105098001723 heme bH binding site [chemical binding]; other site 1105098001724 heme bL binding site [chemical binding]; other site 1105098001725 Qo binding site; other site 1105098001726 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 1105098001727 interchain domain interface [polypeptide binding]; other site 1105098001728 intrachain domain interface; other site 1105098001729 Qi binding site; other site 1105098001730 Qo binding site; other site 1105098001731 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105098001732 Cytochrome c; Region: Cytochrom_C; cl11414 1105098001733 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105098001734 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 1105098001735 putative dimer interface [polypeptide binding]; other site 1105098001736 PCRF domain; Region: PCRF; pfam03462 1105098001737 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105098001738 RF-1 domain; Region: RF-1; pfam00472 1105098001739 GTP-binding protein LepA; Provisional; Region: PRK05433 1105098001740 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105098001741 G1 box; other site 1105098001742 putative GEF interaction site [polypeptide binding]; other site 1105098001743 GTP/Mg2+ binding site [chemical binding]; other site 1105098001744 Switch I region; other site 1105098001745 G2 box; other site 1105098001746 G3 box; other site 1105098001747 Switch II region; other site 1105098001748 G4 box; other site 1105098001749 G5 box; other site 1105098001750 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 1105098001751 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 1105098001752 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105098001753 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105098001754 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105098001755 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105098001756 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105098001757 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098001758 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105098001759 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098001760 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098001761 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105098001762 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105098001763 VirB7 interaction site; other site 1105098001764 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105098001765 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105098001766 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105098001767 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105098001768 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105098001769 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105098001770 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1105098001771 Walker A motif; other site 1105098001772 hexamer interface [polypeptide binding]; other site 1105098001773 ATP binding site [chemical binding]; other site 1105098001774 Walker B motif; other site 1105098001775 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105098001776 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1105098001777 Walker A motif; other site 1105098001778 ATP binding site [chemical binding]; other site 1105098001779 Walker B motif; other site 1105098001780 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105098001781 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105098001782 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105098001783 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105098001784 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105098001785 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 1105098001786 active site 1105098001787 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105098001788 MutS domain I; Region: MutS_I; pfam01624 1105098001789 MutS domain II; Region: MutS_II; pfam05188 1105098001790 MutS domain III; Region: MutS_III; pfam05192 1105098001791 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105098001792 Walker A/P-loop; other site 1105098001793 ATP binding site [chemical binding]; other site 1105098001794 Q-loop/lid; other site 1105098001795 ABC transporter signature motif; other site 1105098001796 Walker B; other site 1105098001797 D-loop; other site 1105098001798 H-loop/switch region; other site 1105098001799 sugar-phosphate isomerase, RpiB/LacA/LacB family; Region: rpiB_lacA_lacB; TIGR00689 1105098001800 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105098001801 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105098001802 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105098001803 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105098001804 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105098001805 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105098001806 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105098001807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105098001808 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 1105098001809 DNA binding residues [nucleotide binding] 1105098001810 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105098001811 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1105098001812 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 1105098001813 Ligand Binding Site [chemical binding]; other site 1105098001814 amino acid transporter; Region: 2A0306; TIGR00909 1105098001815 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105098001816 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 1105098001817 dimer interface [polypeptide binding]; other site 1105098001818 motif 1; other site 1105098001819 active site 1105098001820 motif 2; other site 1105098001821 motif 3; other site 1105098001822 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 1105098001823 anticodon binding site; other site 1105098001824 TolQ protein; Region: tolQ; TIGR02796 1105098001825 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105098001826 TolR protein; Region: tolR; TIGR02801 1105098001827 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105098001828 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105098001829 HD domain; Region: HD_4; pfam13328 1105098001830 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 1105098001831 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098001832 putative substrate translocation pore; other site 1105098001833 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105098001834 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1105098001835 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105098001836 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105098001837 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105098001838 Walker A/P-loop; other site 1105098001839 ATP binding site [chemical binding]; other site 1105098001840 Q-loop/lid; other site 1105098001841 ABC transporter signature motif; other site 1105098001842 Walker B; other site 1105098001843 D-loop; other site 1105098001844 H-loop/switch region; other site 1105098001845 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105098001846 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105098001847 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1105098001848 nucleotide binding site/active site [active] 1105098001849 HIT family signature motif; other site 1105098001850 catalytic residue [active] 1105098001851 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 1105098001852 active site 1105098001853 HslU subunit interaction site [polypeptide binding]; other site 1105098001854 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105098001855 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 1105098001856 Walker A motif; other site 1105098001857 ATP binding site [chemical binding]; other site 1105098001858 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105098001859 Walker B motif; other site 1105098001860 arginine finger; other site 1105098001861 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105098001862 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105098001863 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 1105098001864 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105098001865 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105098001866 dimerization interface [polypeptide binding]; other site 1105098001867 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 1105098001868 putative iron binding site [ion binding]; other site 1105098001869 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105098001870 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105098001871 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105098001872 HIGH motif; other site 1105098001873 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105098001874 active site 1105098001875 KMSKS motif; other site 1105098001876 DNA topoisomerase I; Validated; Region: PRK06599 1105098001877 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 1105098001878 active site 1105098001879 interdomain interaction site; other site 1105098001880 putative metal-binding site [ion binding]; other site 1105098001881 nucleotide binding site [chemical binding]; other site 1105098001882 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 1105098001883 domain I; other site 1105098001884 DNA binding groove [nucleotide binding] 1105098001885 phosphate binding site [ion binding]; other site 1105098001886 domain II; other site 1105098001887 domain III; other site 1105098001888 nucleotide binding site [chemical binding]; other site 1105098001889 catalytic site [active] 1105098001890 domain IV; other site 1105098001891 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105098001892 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105098001893 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1105098001894 dimer interface [polypeptide binding]; other site 1105098001895 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105098001896 catalytic triad [active] 1105098001897 peroxidatic and resolving cysteines [active] 1105098001898 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105098001899 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 1105098001900 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105098001901 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105098001902 Sulfatase; Region: Sulfatase; pfam00884 1105098001903 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105098001904 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105098001905 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105098001906 NADP binding site [chemical binding]; other site 1105098001907 active site 1105098001908 putative substrate binding site [chemical binding]; other site 1105098001909 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105098001910 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105098001911 NAD(P) binding site [chemical binding]; other site 1105098001912 homodimer interface [polypeptide binding]; other site 1105098001913 substrate binding site [chemical binding]; other site 1105098001914 active site 1105098001915 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105098001916 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105098001917 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 1105098001918 active site 1105098001919 homodimer interface [polypeptide binding]; other site 1105098001920 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 1105098001921 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105098001922 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 1105098001923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105098001924 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 1105098001925 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1105098001926 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1105098001927 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105098001928 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 1105098001929 active site 1105098001930 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105098001931 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 1105098001932 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1105098001933 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105098001934 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105098001935 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105098001936 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105098001937 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105098001938 catalytic site [active] 1105098001939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105098001940 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 1105098001941 putative ADP-binding pocket [chemical binding]; other site 1105098001942 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105098001943 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105098001944 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 1105098001945 RNA binding surface [nucleotide binding]; other site 1105098001946 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105098001947 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105098001948 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105098001949 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105098001950 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105098001951 RimM N-terminal domain; Region: RimM; pfam01782 1105098001952 PRC-barrel domain; Region: PRC; pfam05239 1105098001953 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105098001954 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 1105098001955 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105098001956 active site 1105098001957 DNA binding site [nucleotide binding] 1105098001958 hypothetical protein; Provisional; Region: PRK14388 1105098001959 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105098001960 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1105098001961 putative dimer interface [polypeptide binding]; other site 1105098001962 [2Fe-2S] cluster binding site [ion binding]; other site 1105098001963 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1105098001964 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105098001965 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105098001966 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105098001967 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105098001968 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105098001969 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105098001970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105098001971 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105098001972 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 1105098001973 active site 1105098001974 DNA binding site [nucleotide binding] 1105098001975 Int/Topo IB signature motif; other site 1105098001976 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105098001977 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105098001978 NAD binding site [chemical binding]; other site 1105098001979 homotetramer interface [polypeptide binding]; other site 1105098001980 homodimer interface [polypeptide binding]; other site 1105098001981 substrate binding site [chemical binding]; other site 1105098001982 active site 1105098001983 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105098001984 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105098001985 putative active site [active] 1105098001986 catalytic triad [active] 1105098001987 putative dimer interface [polypeptide binding]; other site 1105098001988 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 1105098001989 zinc binding site [ion binding]; other site 1105098001990 putative ligand binding site [chemical binding]; other site 1105098001991 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 1105098001992 TM-ABC transporter signature motif; other site 1105098001993 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105098001994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098001995 Walker A/P-loop; other site 1105098001996 ATP binding site [chemical binding]; other site 1105098001997 Q-loop/lid; other site 1105098001998 ABC transporter signature motif; other site 1105098001999 Walker B; other site 1105098002000 D-loop; other site 1105098002001 H-loop/switch region; other site 1105098002002 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105098002003 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105098002004 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105098002005 active site 1105098002006 HIGH motif; other site 1105098002007 KMSKS motif; other site 1105098002008 Predicted permeases [General function prediction only]; Region: COG0679 1105098002009 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105098002010 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105098002011 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105098002012 putative NAD(P) binding site [chemical binding]; other site 1105098002013 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105098002014 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor...; Region: Sec7; cd00171 1105098002015 active site/putative ARF binding site [active] 1105098002016 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 1105098002017 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105098002018 putative substrate translocation pore; other site 1105098002019 malate dehydrogenase; Reviewed; Region: PRK06223 1105098002020 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105098002021 NAD(P) binding site [chemical binding]; other site 1105098002022 dimer interface [polypeptide binding]; other site 1105098002023 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105098002024 substrate binding site [chemical binding]; other site 1105098002025 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105098002026 CTP synthetase; Validated; Region: pyrG; PRK05380 1105098002027 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 1105098002028 Catalytic site [active] 1105098002029 active site 1105098002030 UTP binding site [chemical binding]; other site 1105098002031 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105098002032 active site 1105098002033 putative oxyanion hole; other site 1105098002034 catalytic triad [active] 1105098002035 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105098002036 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105098002037 Ligand binding site; other site 1105098002038 oligomer interface; other site 1105098002039 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105098002040 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105098002041 active site 1105098002042 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105098002043 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 1105098002044 dimer interface [polypeptide binding]; other site 1105098002045 motif 1; other site 1105098002046 active site 1105098002047 motif 2; other site 1105098002048 motif 3; other site 1105098002049 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 1105098002050 anticodon binding site; other site 1105098002051 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105098002052 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105098002053 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105098002054 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105098002055 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 1105098002056 Walker A motif; other site 1105098002057 ATP binding site [chemical binding]; other site 1105098002058 Walker B motif; other site 1105098002059 arginine finger; other site 1105098002060 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105098002061 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105098002062 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105098002063 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105098002064 Walker A/P-loop; other site 1105098002065 ATP binding site [chemical binding]; other site 1105098002066 Q-loop/lid; other site 1105098002067 ABC transporter signature motif; other site 1105098002068 Walker B; other site 1105098002069 D-loop; other site 1105098002070 H-loop/switch region; other site 1105098002071 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105098002072 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105098002073 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105098002074 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105098002075 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105098002076 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105098002077 BON domain; Region: BON; pfam04972 1105098002078 BON domain; Region: BON; pfam04972 1105098002079 intracellular septation protein A; Reviewed; Region: PRK00259 1105098002080 Iron permease FTR1 family; Region: FTR1; pfam03239 1105098002081 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105098002082 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105098002083 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105098002084 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1105098002085 active site 1105098002086 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 1105098002087 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105098002088 catalytic residues [active] 1105098002089 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105098002090 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105098002091 tandem repeat interface [polypeptide binding]; other site 1105098002092 oligomer interface [polypeptide binding]; other site 1105098002093 active site residues [active] 1105098002094 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105098002095 trimer interface [polypeptide binding]; other site 1105098002096 active site 1105098002097 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105098002098 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 1105098002099 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105098002100 catalytic residue [active] 1105098002101 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105098002102 dimer interface [polypeptide binding]; other site 1105098002103 catalytic triad [active] 1105098002104 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105098002105 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105098002106 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105098002107 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105098002108 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105098002109 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1105098002110 Subunit I/III interface [polypeptide binding]; other site 1105098002111 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1105098002112 D-pathway; other site 1105098002113 Subunit I/VIIc interface [polypeptide binding]; other site 1105098002114 Subunit I/IV interface [polypeptide binding]; other site 1105098002115 Subunit I/II interface [polypeptide binding]; other site 1105098002116 Low-spin heme (heme a) binding site [chemical binding]; other site 1105098002117 Subunit I/VIIa interface [polypeptide binding]; other site 1105098002118 Subunit I/VIa interface [polypeptide binding]; other site 1105098002119 Dimer interface; other site 1105098002120 Putative water exit pathway; other site 1105098002121 Binuclear center (heme a3/CuB) [ion binding]; other site 1105098002122 K-pathway; other site 1105098002123 Subunit I/Vb interface [polypeptide binding]; other site 1105098002124 Putative proton exit pathway; other site 1105098002125 Subunit I/VIb interface; other site 1105098002126 Subunit I/VIc interface [polypeptide binding]; other site 1105098002127 Electron transfer pathway; other site 1105098002128 Subunit I/VIIIb interface [polypeptide binding]; other site 1105098002129 Subunit I/VIIb interface [polypeptide binding]; other site 1105098002130 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105098002131 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00117 1105098002132 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105098002133 putative peptidase; Provisional; Region: PRK11649 1105098002134 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105098002135 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105098002136 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105098002137 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105098002138 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105098002139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105098002140 cell division protein FtsW; Region: ftsW; TIGR02614 1105098002141 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1105098002142 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 1105098002143 active site 1105098002144 homodimer interface [polypeptide binding]; other site 1105098002145 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1105098002146 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105098002147 diaminopimelate epimerase; Region: DapF; TIGR00652 1105098002148 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105098002149 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105098002150 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105098002151 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105098002152 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 1105098002153 FeS/SAM binding site; other site 1105098002154 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105098002155 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105098002156 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 1105098002157 dimer interface [polypeptide binding]; other site 1105098002158 motif 1; other site 1105098002159 active site 1105098002160 motif 2; other site 1105098002161 motif 3; other site 1105098002162 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105098002163 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 1105098002164 putative tRNA-binding site [nucleotide binding]; other site 1105098002165 B3/4 domain; Region: B3_4; pfam03483 1105098002166 tRNA synthetase B5 domain; Region: B5; smart00874 1105098002167 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 1105098002168 dimer interface [polypeptide binding]; other site 1105098002169 motif 1; other site 1105098002170 motif 3; other site 1105098002171 motif 2; other site 1105098002172 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105098002173 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 1105098002174 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105098002175 putative DNA binding surface [nucleotide binding]; other site 1105098002176 dimer interface [polypeptide binding]; other site 1105098002177 beta-clamp/clamp loader binding surface; other site 1105098002178 beta-clamp/translesion DNA polymerase binding surface; other site 1105098002179 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105098002180 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105098002181 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105098002182 HIGH motif; other site 1105098002183 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105098002184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105098002185 active site 1105098002186 KMSKS motif; other site 1105098002187 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105098002188 tRNA binding surface [nucleotide binding]; other site 1105098002189 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105098002190 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105098002191 catalytic site [active] 1105098002192 putative active site [active] 1105098002193 putative substrate binding site [chemical binding]; other site 1105098002194 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105098002195 Septum formation initiator; Region: DivIC; pfam04977 1105098002196 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105098002197 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 1105098002198 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105098002199 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1105098002200 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1105098002201 catalytic residue [active] 1105098002202 putative FPP diphosphate binding site; other site 1105098002203 putative FPP binding hydrophobic cleft; other site 1105098002204 dimer interface [polypeptide binding]; other site 1105098002205 putative IPP diphosphate binding site; other site 1105098002206 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105098002207 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 1105098002208 dimer interface [polypeptide binding]; other site 1105098002209 phosphorylation site [posttranslational modification] 1105098002210 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 1105098002211 ATP binding site [chemical binding]; other site 1105098002212 Mg2+ binding site [ion binding]; other site 1105098002213 G-X-G motif; other site 1105098002214 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105098002215 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 1105098002216 active site 1105098002217 phosphorylation site [posttranslational modification] 1105098002218 intermolecular recognition site; other site 1105098002219 dimerization interface [polypeptide binding]; other site 1105098002220 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 1105098002221 DNA binding site [nucleotide binding] 1105098002222 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105098002223 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 1105098002224 homodimer interface [polypeptide binding]; other site 1105098002225 substrate-cofactor binding pocket; other site 1105098002226 catalytic residue [active] 1105098002227 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105098002228 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105098002229 dimer interface [polypeptide binding]; other site 1105098002230 active site 1105098002231 catalytic residue [active] 1105098002232 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 1105098002233 SmpB-tmRNA interface; other site 1105098002234 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1105098002235 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105098002236 catalytic residues [active] 1105098002237 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105098002238 CoA binding domain; Region: CoA_binding; pfam02629 1105098002239 CoA-ligase; Region: Ligase_CoA; pfam00549 1105098002240 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105098002241 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105098002242 CoA-ligase; Region: Ligase_CoA; pfam00549 1105098002243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105098002244 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105098002245 Predicted membrane protein [Function unknown]; Region: COG1238 1105098002246 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105098002247 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105098002248 RecR protein; Region: RecR; pfam02132 1105098002249 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 1105098002250 putative active site [active] 1105098002251 putative metal-binding site [ion binding]; other site 1105098002252 tetramer interface [polypeptide binding]; other site 1105098002253 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105098002254 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105098002255 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105098002256 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105098002257 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105098002258 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105098002259 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105098002260 Predicted permeases [General function prediction only]; Region: COG0679 1105098002261 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105098002262 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105098002263 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105098002264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105098002265 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105098002266 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 1105098002267 active site 1105098002268 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105098002269 Part of AAA domain; Region: AAA_19; pfam13245 1105098002270 Family description; Region: UvrD_C_2; pfam13538 1105098002271 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105098002272 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 1105098002273 tetramer interface [polypeptide binding]; other site 1105098002274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105098002275 catalytic residue [active] 1105098002276 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105098002277 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105098002278 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 1105098002279 Walker A motif; other site 1105098002280 ATP binding site [chemical binding]; other site 1105098002281 Walker B motif; other site 1105098002282 arginine finger; other site 1105098002283 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105098002284 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105098002285 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105098002286 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1105098002287 homotetramer interface [polypeptide binding]; other site 1105098002288 FMN binding site [chemical binding]; other site 1105098002289 homodimer contacts [polypeptide binding]; other site 1105098002290 putative active site [active] 1105098002291 putative substrate binding site [chemical binding]; other site 1105098002292 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1105098002293 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105098002294 Substrate binding site; other site 1105098002295 Mg++ binding site; other site 1105098002296 hypothetical protein; Validated; Region: PRK00110 1105098002297 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105098002298 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105098002299 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 1105098002300 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105098002301 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105098002302 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105098002303 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1105098002304 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1105098002305 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105098002306 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105098002307 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105098002308 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105098002309 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105098002310 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105098002311 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105098002312 catalytic site [active] 1105098002313 putative active site [active] 1105098002314 putative substrate binding site [chemical binding]; other site 1105098002315 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105098002316 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1105098002317 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1105098002318 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105098002319 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105098002320 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105098002321 Na binding site [ion binding]; other site 1105098002322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105098002323 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 1105098002324 dimer interface [polypeptide binding]; other site 1105098002325 phosphorylation site [posttranslational modification] 1105098002326 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 1105098002327 ATP binding site [chemical binding]; other site 1105098002328 Mg2+ binding site [ion binding]; other site 1105098002329 G-X-G motif; other site 1105098002330 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105098002331 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 1105098002332 domain interfaces; other site 1105098002333 active site 1105098002334 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105098002335 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105098002336 active site 1105098002337 HIGH motif; other site 1105098002338 dimer interface [polypeptide binding]; other site 1105098002339 KMSKS motif; other site 1105098002340 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105098002341 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105098002342 putative acyl-acceptor binding pocket; other site 1105098002343 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105098002344 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105098002345 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105098002346 HemY protein N-terminus; Region: HemY_N; pfam07219 1105098002347 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 1105098002348 active site 1105098002349 AmpG-like permease; Region: 2A0125; TIGR00901 1105098002350 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1105098002351 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1105098002352 Ligand binding site; other site 1105098002353 metal-binding site 1105098002354 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105098002355 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105098002356 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105098002357 substrate binding pocket [chemical binding]; other site 1105098002358 chain length determination region; other site 1105098002359 substrate-Mg2+ binding site; other site 1105098002360 catalytic residues [active] 1105098002361 aspartate-rich region 1; other site 1105098002362 active site lid residues [active] 1105098002363 aspartate-rich region 2; other site 1105098002364 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105098002365 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105098002366 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1105098002367 active site 1105098002368 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105098002369 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105098002370 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105098002371 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105098002372 trimerization site [polypeptide binding]; other site 1105098002373 active site 1105098002374 cysteine desulfurase; Provisional; Region: PRK14012 1105098002375 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105098002376 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105098002377 catalytic residue [active] 1105098002378 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105098002379 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105098002380 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105098002381 catalytic residue [active] 1105098002382 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105098002383 Transcriptional regulator; Region: Rrf2; cl17282 1105098002384 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105098002385 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1105098002386 GSH binding site (G-site) [chemical binding]; other site 1105098002387 C-terminal domain interface [polypeptide binding]; other site 1105098002388 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105098002389 N-terminal domain interface [polypeptide binding]; other site 1105098002390 dimer interface [polypeptide binding]; other site 1105098002391 substrate binding pocket (H-site) [chemical binding]; other site 1105098002392 pyruvate, phosphate dikinase; Region: pyru_phos_dikin; TIGR01828 1105098002393 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105098002394 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105098002395 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105098002396 hypothetical protein; Provisional; Region: PRK06661 1105098002397 intersubunit interface [polypeptide binding]; other site 1105098002398 active site 1105098002399 Zn2+ binding site [ion binding]; other site 1105098002400 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105098002401 uncharacterized protein, YfiH family; Region: TIGR00726 1105098002402 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105098002403 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105098002404 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105098002405 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 1105098002406 non-specific DNA binding site [nucleotide binding]; other site 1105098002407 salt bridge; other site 1105098002408 sequence-specific DNA binding site [nucleotide binding]; other site 1105098002409 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105098002410 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105098002411 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 1105098002412 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105098002413 RNA binding site [nucleotide binding]; other site 1105098002414 active site 1105098002415 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 1105098002416 16S/18S rRNA binding site [nucleotide binding]; other site 1105098002417 S13e-L30e interaction site [polypeptide binding]; other site 1105098002418 25S rRNA binding site [nucleotide binding]; other site 1105098002419 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105098002420 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1105098002421 oligomer interface [polypeptide binding]; other site 1105098002422 RNA binding site [nucleotide binding]; other site 1105098002423 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105098002424 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105098002425 RNase E interface [polypeptide binding]; other site 1105098002426 trimer interface [polypeptide binding]; other site 1105098002427 active site 1105098002428 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 1105098002429 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 1105098002430 RNA binding site [nucleotide binding]; other site 1105098002431 domain interface; other site 1105098002432 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1105098002433 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 1105098002434 putative active site [active] 1105098002435 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 1105098002436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105098002437 OstA-like protein; Region: OstA; pfam03968 1105098002438 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105098002439 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1105098002440 Walker A/P-loop; other site 1105098002441 ATP binding site [chemical binding]; other site 1105098002442 Q-loop/lid; other site 1105098002443 ABC transporter signature motif; other site 1105098002444 Walker B; other site 1105098002445 D-loop; other site 1105098002446 H-loop/switch region; other site 1105098002447 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105098002448 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1105098002449 active site 1105098002450 substrate binding site [chemical binding]; other site 1105098002451 metal binding site [ion binding]; metal-binding site 1105098002452 potential frameshift: common BLAST hit: gi|15604370|ref|NP_220886.1| tRNA delta(2)-isopentenylpyrophosphate transferase 1105098002453 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105098002454 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105098002455 dimer interface [polypeptide binding]; other site 1105098002456 putative radical transfer pathway; other site 1105098002457 diiron center [ion binding]; other site 1105098002458 tyrosyl radical; other site 1105098002459 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105098002460 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105098002461 active site 1105098002462 dimer interface [polypeptide binding]; other site 1105098002463 catalytic residues [active] 1105098002464 effector binding site; other site 1105098002465 R2 peptide binding site; other site 1105098002466 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105098002467 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105098002468 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105098002469 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105098002470 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105098002471 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105098002472 homodimer interface [polypeptide binding]; other site 1105098002473 NADP binding site [chemical binding]; other site 1105098002474 substrate binding site [chemical binding]; other site 1105098002475 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1105098002476 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1105098002477 trimer interface [polypeptide binding]; other site 1105098002478 putative metal binding site [ion binding]; other site 1105098002479 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 1105098002480 30S subunit binding site; other site 1105098002481 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105098002482 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105098002483 oligomer interface [polypeptide binding]; other site 1105098002484 active site residues [active] 1105098002485 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105098002486 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 1105098002487 RNA binding site [nucleotide binding]; other site 1105098002488 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 1105098002489 RNA binding site [nucleotide binding]; other site 1105098002490 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 1105098002491 RNA binding site [nucleotide binding]; other site 1105098002492 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 1105098002493 RNA binding site [nucleotide binding]; other site 1105098002494 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 1105098002495 RNA binding site [nucleotide binding]; other site 1105098002496 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 1105098002497 RNA binding site [nucleotide binding]; other site 1105098002498 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105098002499 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 1105098002500 CMP-binding site; other site 1105098002501 The sites determining sugar specificity; other site 1105098002502 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105098002503 IHF - DNA interface [nucleotide binding]; other site 1105098002504 IHF dimer interface [polypeptide binding]; other site 1105098002505 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105098002506 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105098002507 tandem repeat interface [polypeptide binding]; other site 1105098002508 oligomer interface [polypeptide binding]; other site 1105098002509 active site residues [active] 1105098002510 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105098002511 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105098002512 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 1105098002513 RNA binding site [nucleotide binding]; other site 1105098002514 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 1105098002515 multimer interface [polypeptide binding]; other site 1105098002516 Walker A motif; other site 1105098002517 ATP binding site [chemical binding]; other site 1105098002518 Walker B motif; other site 1105098002519 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 1105098002520 S-adenosylmethionine binding site [chemical binding]; other site 1105098002521 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105098002522 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105098002523 DHH family; Region: DHH; pfam01368 1105098002524 DHHA1 domain; Region: DHHA1; pfam02272 1105098002525 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105098002526 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105098002527 RF-1 domain; Region: RF-1; pfam00472 1105098002528 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 1105098002529 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105098002530 E3 interaction surface; other site 1105098002531 lipoyl attachment site [posttranslational modification]; other site 1105098002532 e3 binding domain; Region: E3_binding; pfam02817 1105098002533 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105098002534 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105098002535 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105098002536 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105098002537 Predicted membrane protein [Function unknown]; Region: COG5346 1105098002538 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105098002539 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105098002540 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105098002541 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1105098002542 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1105098002543 active site 1105098002544 nucleophile elbow; other site 1105098002545 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105098002546 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105098002547 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105098002548 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1105098002549 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 1105098002550 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105098002551 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 1105098002552 dimer interface [polypeptide binding]; other site 1105098002553 allosteric magnesium binding site [ion binding]; other site 1105098002554 active site 1105098002555 aspartate-rich active site metal binding site; other site 1105098002556 Schiff base residues; other site 1105098002557 primosome assembly protein PriA; Validated; Region: PRK05580 1105098002558 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 1105098002559 ATP binding site [chemical binding]; other site 1105098002560 putative Mg++ binding site [ion binding]; other site 1105098002561 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105098002562 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1105098002563 Flavoprotein; Region: Flavoprotein; pfam02441 1105098002564 replicative DNA helicase; Provisional; Region: PRK09165 1105098002565 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105098002566 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 1105098002567 Walker A motif; other site 1105098002568 ATP binding site [chemical binding]; other site 1105098002569 Walker B motif; other site 1105098002570 DNA binding loops [nucleotide binding] 1105098002571 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105098002572 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 1105098002573 RNA binding surface [nucleotide binding]; other site 1105098002574 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1105098002575 probable active site [active] 1105098002576 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105098002577 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 1105098002578 S-adenosylmethionine binding site [chemical binding]; other site 1105098002579 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105098002580 DNA repair protein RadA; Provisional; Region: PRK11823 1105098002581 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 1105098002582 Walker A motif; other site 1105098002583 ATP binding site [chemical binding]; other site 1105098002584 Walker B motif; other site 1105098002585 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105098002586 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1105098002587 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105098002588 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105098002589 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105098002590 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105098002591 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105098002592 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105098002593 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105098002594 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105098002595 G1 box; other site 1105098002596 putative GEF interaction site [polypeptide binding]; other site 1105098002597 GTP/Mg2+ binding site [chemical binding]; other site 1105098002598 Switch I region; other site 1105098002599 G2 box; other site 1105098002600 G3 box; other site 1105098002601 Switch II region; other site 1105098002602 G4 box; other site 1105098002603 G5 box; other site 1105098002604 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 1105098002605 Translation-initiation factor 2; Region: IF-2; pfam11987 1105098002606 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 1105098002607 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105098002608 NusA N-terminal domain; Region: NusA_N; pfam08529 1105098002609 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 1105098002610 RNA binding site [nucleotide binding]; other site 1105098002611 homodimer interface [polypeptide binding]; other site 1105098002612 NusA-like KH domain; Region: KH_5; pfam13184 1105098002613 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 1105098002614 G-X-X-G motif; other site 1105098002615 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105098002616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105098002617 Sm and related proteins; Region: Sm_like; cl00259 1105098002618 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105098002619 putative oligomer interface [polypeptide binding]; other site 1105098002620 putative RNA binding site [nucleotide binding]; other site 1105098002621 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105098002622 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 1105098002623 RNA binding surface [nucleotide binding]; other site 1105098002624 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105098002625 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105098002626 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105098002627 active site 1105098002628 HIGH motif; other site 1105098002629 dimer interface [polypeptide binding]; other site 1105098002630 KMSKS motif; other site 1105098002631 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 1105098002632 RNA binding surface [nucleotide binding]; other site 1105098002633 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1105098002634 MG2 domain; Region: A2M_N; pfam01835 1105098002635 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1105098002636 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1105098002637 surface patch; other site 1105098002638 thioester region; other site 1105098002639 specificity defining residues; other site 1105098002640 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1105098002641 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1105098002642 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1105098002643 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1105098002644 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 1105098002645 substrate binding site [chemical binding]; other site 1105098002646 oxyanion hole (OAH) forming residues; other site 1105098002647 trimer interface [polypeptide binding]; other site 1105098002648 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105098002649 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105098002650 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105098002651 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105098002652 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 1105098002653 active site 1105098002654 phosphorylation site [posttranslational modification] 1105098002655 intermolecular recognition site; other site 1105098002656 dimerization interface [polypeptide binding]; other site 1105098002657 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 1105098002658 Walker A motif; other site 1105098002659 ATP binding site [chemical binding]; other site 1105098002660 Walker B motif; other site 1105098002661 arginine finger; other site 1105098002662 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105098002663 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105098002664 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105098002665 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105098002666 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105098002667 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105098002668 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105098002669 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105098002670 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105098002671 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105098002672 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105098002673 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105098002674 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105098002675 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105098002676 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 1105098002677 S-adenosylmethionine binding site [chemical binding]; other site 1105098002678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105098002679 MraZ protein; Region: MraZ; pfam02381 1105098002680 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105098002681 Na binding site [ion binding]; other site 1105098002682 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105098002683 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105098002684 GIY-YIG motif/motif A; other site 1105098002685 active site 1105098002686 catalytic site [active] 1105098002687 putative DNA binding site [nucleotide binding]; other site 1105098002688 metal binding site [ion binding]; metal-binding site 1105098002689 UvrB/uvrC motif; Region: UVR; pfam02151 1105098002690 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105098002691 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105098002692 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105098002693 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105098002694 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105098002695 SEC-C motif; Region: SEC-C; pfam02810 1105098002696 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1105098002697 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105098002698 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105098002699 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105098002700 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105098002701 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 1105098002702 hinge; other site 1105098002703 active site 1105098002704 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105098002705 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 1105098002706 Mg2+ binding site [ion binding]; other site 1105098002707 G-X-G motif; other site 1105098002708 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 1105098002709 anchoring element; other site 1105098002710 dimer interface [polypeptide binding]; other site 1105098002711 ATP binding site [chemical binding]; other site 1105098002712 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 1105098002713 active site 1105098002714 putative metal-binding site [ion binding]; other site 1105098002715 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105098002716 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105098002717 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 1105098002718 active site 1105098002719 motif I; other site 1105098002720 motif II; other site 1105098002721 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 1105098002722 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105098002723 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105098002724 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1105098002725 Divalent cation transporter; Region: MgtE; pfam01769 1105098002726 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105098002727 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105098002728 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105098002729 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105098002730 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 1105098002731 Cu(I) binding site [ion binding]; other site 1105098002732 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 1105098002733 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 1105098002734 dimer interface [polypeptide binding]; other site 1105098002735 substrate binding site [chemical binding]; other site 1105098002736 metal binding sites [ion binding]; metal-binding site 1105098002737 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105098002738 MviN-like protein; Region: MVIN; pfam03023 1105098002739 TraX protein; Region: TraX; pfam05857 1105098002740 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105098002741 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 1105098002742 ssDNA binding site; other site 1105098002743 generic binding surface II; other site 1105098002744 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 1105098002745 ATP binding site [chemical binding]; other site 1105098002746 putative Mg++ binding site [ion binding]; other site 1105098002747 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 1105098002748 nucleotide binding region [chemical binding]; other site 1105098002749 ATP-binding site [chemical binding]; other site 1105098002750 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105098002751 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 1105098002752 Mg++ binding site [ion binding]; other site 1105098002753 putative catalytic motif [active] 1105098002754 putative substrate binding site [chemical binding]; other site 1105098002755 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105098002756 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1105098002757 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105098002758 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105098002759 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1105098002760 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105098002761 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105098002762 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105098002763 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1105098002764 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1105098002765 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 1105098002766 ATP binding site [chemical binding]; other site 1105098002767 putative Mg++ binding site [ion binding]; other site 1105098002768 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 1105098002769 nucleotide binding region [chemical binding]; other site 1105098002770 ATP-binding site [chemical binding]; other site 1105098002771 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1105098002772 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105098002773 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1105098002774 active site residue [active] 1105098002775 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105098002776 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105098002777 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 1105098002778 Walker A motif; other site 1105098002779 ATP binding site [chemical binding]; other site 1105098002780 Walker B motif; other site 1105098002781 arginine finger; other site 1105098002782 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 1105098002783 DnaA box-binding interface [nucleotide binding]; other site 1105098002784 Patatin [General function prediction only]; Region: COG3621 1105098002785 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105098002786 active site 1105098002787 nucleophile elbow; other site 1105098002788 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105098002789 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 1105098002790 putative substrate translocation pore; other site 1105098002791 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105098002792 YchF GTPase; Region: YchF; cd01900 1105098002793 G1 box; other site 1105098002794 GTP/Mg2+ binding site [chemical binding]; other site 1105098002795 Switch I region; other site 1105098002796 G2 box; other site 1105098002797 Switch II region; other site 1105098002798 G3 box; other site 1105098002799 G4 box; other site 1105098002800 G5 box; other site 1105098002801 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 1105098002802 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 1105098002803 putative active site [active] 1105098002804 catalytic residue [active] 1105098002805 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105098002806 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105098002807 5S rRNA interface [nucleotide binding]; other site 1105098002808 CTC domain interface [polypeptide binding]; other site 1105098002809 L16 interface [polypeptide binding]; other site 1105098002810 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105098002811 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1105098002812 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105098002813 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105098002814 23S rRNA binding site [nucleotide binding]; other site 1105098002815 L21 binding site [polypeptide binding]; other site 1105098002816 L13 binding site [polypeptide binding]; other site 1105098002817 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105098002818 ribonuclease P; Reviewed; Region: rnpA; PRK01492