-- dump date 20140620_034636 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105104000001 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105104000002 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105104000003 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1105104000004 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105104000005 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105104000006 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105104000007 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105104000008 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105104000009 PLD-like domain; Region: PLDc_2; pfam13091 1105104000010 putative active site [active] 1105104000011 catalytic site [active] 1105104000012 Phasin protein; Region: Phasin_2; cl11491 1105104000013 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105104000014 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 1105104000015 active site 1105104000016 DNA binding site [nucleotide binding] 1105104000017 Int/Topo IB signature motif; other site 1105104000018 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105104000019 Maf-like protein; Region: Maf; pfam02545 1105104000020 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 1105104000021 active site 1105104000022 dimer interface [polypeptide binding]; other site 1105104000023 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 1105104000024 rRNA binding site [nucleotide binding]; other site 1105104000025 predicted 30S ribosome binding site; other site 1105104000026 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1105104000027 potential frameshift: common BLAST hit: gi|67459682|ref|YP_247306.1| cell surface antigen-like protein Sca13 1105104000028 potential frameshift: common BLAST hit: gi|91204964|ref|YP_537319.1| cell surface antigen Sca13 1105104000029 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105104000030 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105104000031 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105104000032 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105104000033 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105104000034 TrkA-N domain; Region: TrkA_N; pfam02254 1105104000035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105104000036 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105104000037 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105104000038 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104000039 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104000040 potential frameshift: common BLAST hit: gi|67459672|ref|YP_247296.1| nucleotidyltransferase/HEPN domain-containing protein 1105104000041 HEPN domain; Region: HEPN; cl00824 1105104000042 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105104000043 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105104000044 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 1105104000045 FeS/SAM binding site; other site 1105104000046 TRAM domain; Region: TRAM; pfam01938 1105104000047 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105104000048 Transglycosylase; Region: Transgly; pfam00912 1105104000049 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105104000050 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1105104000051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105104000052 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105104000053 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105104000054 dimerization interface [polypeptide binding]; other site 1105104000055 DPS ferroxidase diiron center [ion binding]; other site 1105104000056 ion pore; other site 1105104000057 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105104000058 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105104000059 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105104000060 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105104000061 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105104000062 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105104000063 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105104000064 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105104000065 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 1105104000066 beta subunit interaction interface [polypeptide binding]; other site 1105104000067 Walker A motif; other site 1105104000068 ATP binding site [chemical binding]; other site 1105104000069 Walker B motif; other site 1105104000070 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105104000071 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105104000072 core domain interface [polypeptide binding]; other site 1105104000073 delta subunit interface [polypeptide binding]; other site 1105104000074 epsilon subunit interface [polypeptide binding]; other site 1105104000075 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105104000076 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105104000077 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 1105104000078 alpha subunit interaction interface [polypeptide binding]; other site 1105104000079 Walker A motif; other site 1105104000080 ATP binding site [chemical binding]; other site 1105104000081 Walker B motif; other site 1105104000082 inhibitor binding site; inhibition site 1105104000083 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105104000084 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105104000085 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105104000086 gamma subunit interface [polypeptide binding]; other site 1105104000087 epsilon subunit interface [polypeptide binding]; other site 1105104000088 LBP interface [polypeptide binding]; other site 1105104000089 aconitate hydratase; Validated; Region: PRK09277 1105104000090 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105104000091 substrate binding site [chemical binding]; other site 1105104000092 ligand binding site [chemical binding]; other site 1105104000093 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 1105104000094 substrate binding site [chemical binding]; other site 1105104000095 Predicted membrane protein [Function unknown]; Region: COG3671 1105104000096 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105104000097 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 1105104000098 catalytic loop [active] 1105104000099 iron binding site [ion binding]; other site 1105104000100 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105104000101 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 1105104000102 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105104000103 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105104000104 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105104000105 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105104000106 4Fe-4S binding domain; Region: Fer4; cl02805 1105104000107 4Fe-4S binding domain; Region: Fer4; pfam00037 1105104000108 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105104000109 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104000110 Walker A/P-loop; other site 1105104000111 ATP binding site [chemical binding]; other site 1105104000112 Q-loop/lid; other site 1105104000113 ABC transporter signature motif; other site 1105104000114 Walker B; other site 1105104000115 D-loop; other site 1105104000116 H-loop/switch region; other site 1105104000117 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105104000118 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104000119 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105104000120 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105104000121 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104000122 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105104000123 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105104000124 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105104000125 Predicted transcriptional regulator [Transcription]; Region: COG2944 1105104000126 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 1105104000127 salt bridge; other site 1105104000128 non-specific DNA binding site [nucleotide binding]; other site 1105104000129 sequence-specific DNA binding site [nucleotide binding]; other site 1105104000130 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105104000131 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 1105104000132 S-adenosylmethionine binding site [chemical binding]; other site 1105104000133 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105104000134 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105104000135 Integral membrane protein TerC family; Region: TerC; cl10468 1105104000136 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105104000137 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105104000138 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105104000139 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105104000140 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105104000141 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 1105104000142 dimer interface [polypeptide binding]; other site 1105104000143 active site 1105104000144 motif 1; other site 1105104000145 motif 2; other site 1105104000146 motif 3; other site 1105104000147 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105104000148 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 1105104000149 putative substrate translocation pore; other site 1105104000150 Protein of unknown function; Region: DUF3971; pfam13116 1105104000151 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105104000152 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105104000153 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105104000154 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105104000155 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1105104000156 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1105104000157 putative active site [active] 1105104000158 putative PHP Thumb interface [polypeptide binding]; other site 1105104000159 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1105104000160 generic binding surface I; other site 1105104000161 generic binding surface II; other site 1105104000162 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105104000163 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105104000164 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105104000165 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105104000166 DNA polymerase I; Provisional; Region: PRK05755 1105104000167 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105104000168 active site 1105104000169 metal binding site 1 [ion binding]; metal-binding site 1105104000170 putative 5' ssDNA interaction site; other site 1105104000171 metal binding site 3; metal-binding site 1105104000172 metal binding site 2 [ion binding]; metal-binding site 1105104000173 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105104000174 putative DNA binding site [nucleotide binding]; other site 1105104000175 putative metal binding site [ion binding]; other site 1105104000176 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1105104000177 active site 1105104000178 substrate binding site [chemical binding]; other site 1105104000179 catalytic site [active] 1105104000180 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105104000181 active site 1105104000182 DNA binding site [nucleotide binding] 1105104000183 catalytic site [active] 1105104000184 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105104000185 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1105104000186 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 1105104000187 P loop; other site 1105104000188 GTP binding site [chemical binding]; other site 1105104000189 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105104000190 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1105104000191 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105104000192 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1105104000193 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 1105104000194 dimer interface [polypeptide binding]; other site 1105104000195 active site 1105104000196 CoA binding pocket [chemical binding]; other site 1105104000197 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000198 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105104000199 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105104000200 ligand binding site [chemical binding]; other site 1105104000201 Predicted permeases [General function prediction only]; Region: COG0795 1105104000202 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105104000203 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105104000204 MreB and similar proteins; Region: MreB_like; cd10225 1105104000205 nucleotide binding site [chemical binding]; other site 1105104000206 Mg binding site [ion binding]; other site 1105104000207 putative protofilament interaction site [polypeptide binding]; other site 1105104000208 RodZ interaction site [polypeptide binding]; other site 1105104000209 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105104000210 rod shape-determining protein MreC; Region: MreC; pfam04085 1105104000211 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 1105104000212 sequence-specific DNA binding site [nucleotide binding]; other site 1105104000213 salt bridge; other site 1105104000214 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000215 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105104000216 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 1105104000217 catalytic site [active] 1105104000218 G-X2-G-X-G-K; other site 1105104000219 AAA domain; Region: AAA_14; pfam13173 1105104000220 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1105104000221 endonuclease subunit; Provisional; Region: 46; PHA02562 1105104000222 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105104000223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104000224 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104000225 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105104000226 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 1105104000227 dimer interface [polypeptide binding]; other site 1105104000228 active site 1105104000229 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105104000230 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105104000231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105104000232 NAD(P) binding site [chemical binding]; other site 1105104000233 active site 1105104000234 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 1105104000235 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1105104000236 hexamer interface [polypeptide binding]; other site 1105104000237 Walker A motif; other site 1105104000238 ATP binding site [chemical binding]; other site 1105104000239 Walker B motif; other site 1105104000240 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105104000241 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105104000242 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105104000243 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105104000244 G1 box; other site 1105104000245 GTP/Mg2+ binding site [chemical binding]; other site 1105104000246 Switch I region; other site 1105104000247 G2 box; other site 1105104000248 Switch II region; other site 1105104000249 G3 box; other site 1105104000250 G4 box; other site 1105104000251 G5 box; other site 1105104000252 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105104000253 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105104000254 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105104000255 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105104000256 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105104000257 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000258 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105104000259 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 1105104000260 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104000261 putative substrate translocation pore; other site 1105104000262 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1105104000263 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1105104000264 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1105104000265 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105104000266 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1105104000267 aspartate kinase; Reviewed; Region: PRK06635 1105104000268 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1105104000269 putative nucleotide binding site [chemical binding]; other site 1105104000270 putative catalytic residues [active] 1105104000271 putative Mg ion binding site [ion binding]; other site 1105104000272 putative aspartate binding site [chemical binding]; other site 1105104000273 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 1105104000274 putative allosteric regulatory residue; other site 1105104000275 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105104000276 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105104000277 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105104000278 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105104000279 tetramer interfaces [polypeptide binding]; other site 1105104000280 binuclear metal-binding site [ion binding]; other site 1105104000281 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105104000282 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105104000283 putative ligand binding site [chemical binding]; other site 1105104000284 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105104000285 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105104000286 putative SAM binding site [chemical binding]; other site 1105104000287 putative homodimer interface [polypeptide binding]; other site 1105104000288 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104000289 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104000290 Predicted small secreted protein [Function unknown]; Region: COG5510 1105104000291 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105104000292 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105104000293 minor groove reading motif; other site 1105104000294 helix-hairpin-helix signature motif; other site 1105104000295 substrate binding pocket [chemical binding]; other site 1105104000296 active site 1105104000297 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105104000298 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 1105104000299 putative GSH binding site [chemical binding]; other site 1105104000300 catalytic residues [active] 1105104000301 Predicted esterase [General function prediction only]; Region: COG0400 1105104000302 putative hydrolase; Provisional; Region: PRK11460 1105104000303 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105104000304 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 1105104000305 dimer interface [polypeptide binding]; other site 1105104000306 active site 1105104000307 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105104000308 folate binding site [chemical binding]; other site 1105104000309 lipoyl synthase; Provisional; Region: PRK05481 1105104000310 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 1105104000311 FeS/SAM binding site; other site 1105104000312 PemK-like protein; Region: PemK; cl00995 1105104000313 metal-binding heat shock protein; Provisional; Region: PRK00016 1105104000314 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1105104000315 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 1105104000316 Transporter associated domain; Region: CorC_HlyC; smart01091 1105104000317 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1105104000318 nudix motif; other site 1105104000319 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105104000320 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105104000321 potential frameshift: common BLAST hit: gi|341584292|ref|YP_004764783.1| superfamily I DNA/RNA helicase 1105104000322 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1105104000323 potential frameshift: common BLAST hit: gi|67458557|ref|YP_246181.1| superfamily I DNA/RNA helicase 1105104000324 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105104000325 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1105104000326 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105104000327 Part of AAA domain; Region: AAA_19; pfam13245 1105104000328 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105104000329 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105104000330 Family description; Region: UvrD_C_2; pfam13538 1105104000331 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 1105104000332 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105104000333 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 1105104000334 active site 1105104000335 catalytic site [active] 1105104000336 substrate binding site [chemical binding]; other site 1105104000337 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105104000338 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 1105104000339 CoA-binding site [chemical binding]; other site 1105104000340 ATP-binding [chemical binding]; other site 1105104000341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105104000342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105104000343 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105104000344 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105104000345 active site 1105104000346 hypothetical protein; Provisional; Region: PRK06630 1105104000347 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105104000348 mce related protein; Region: MCE; pfam02470 1105104000349 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105104000350 HD domain; Region: HD_4; pfam13328 1105104000351 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105104000352 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105104000353 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105104000354 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 1105104000355 nucleotide binding pocket [chemical binding]; other site 1105104000356 K-X-D-G motif; other site 1105104000357 catalytic site [active] 1105104000358 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105104000359 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105104000360 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 1105104000361 Dimer interface [polypeptide binding]; other site 1105104000362 BRCT sequence motif; other site 1105104000363 Protein of unknown function (DUF519); Region: DUF519; pfam04378 1105104000364 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1105104000365 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105104000366 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1105104000367 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105104000368 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1105104000369 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105104000370 putative acyl-acceptor binding pocket; other site 1105104000371 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105104000372 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1105104000373 catalytic triad [active] 1105104000374 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 1105104000375 IHF dimer interface [polypeptide binding]; other site 1105104000376 IHF - DNA interface [nucleotide binding]; other site 1105104000377 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1105104000378 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105104000379 DNA binding residues [nucleotide binding] 1105104000380 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105104000381 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105104000382 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105104000383 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105104000384 synthetase active site [active] 1105104000385 NTP binding site [chemical binding]; other site 1105104000386 metal binding site [ion binding]; metal-binding site 1105104000387 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105104000388 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105104000389 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105104000390 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105104000391 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105104000392 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105104000393 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 1105104000394 Transporter associated domain; Region: CorC_HlyC; smart01091 1105104000395 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105104000396 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105104000397 Walker A/P-loop; other site 1105104000398 ATP binding site [chemical binding]; other site 1105104000399 Q-loop/lid; other site 1105104000400 ABC transporter signature motif; other site 1105104000401 Walker B; other site 1105104000402 D-loop; other site 1105104000403 H-loop/switch region; other site 1105104000404 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105104000405 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105104000406 FtsX-like permease family; Region: FtsX; pfam02687 1105104000407 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105104000408 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 1105104000409 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105104000410 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105104000411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105104000412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104000413 Walker A/P-loop; other site 1105104000414 ATP binding site [chemical binding]; other site 1105104000415 Q-loop/lid; other site 1105104000416 ABC transporter signature motif; other site 1105104000417 Walker B; other site 1105104000418 D-loop; other site 1105104000419 H-loop/switch region; other site 1105104000420 YcfA-like protein; Region: YcfA; cl00752 1105104000421 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1105104000422 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1105104000423 HicB family; Region: HicB; pfam05534 1105104000424 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 1105104000425 Ligand Binding Site [chemical binding]; other site 1105104000426 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105104000427 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105104000428 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105104000429 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105104000430 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 1105104000431 Walker A motif; other site 1105104000432 ATP binding site [chemical binding]; other site 1105104000433 Walker B motif; other site 1105104000434 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105104000435 DoxX-like family; Region: DoxX_3; pfam13781 1105104000436 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 1105104000437 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105104000438 RmuC family; Region: RmuC; pfam02646 1105104000439 potential frameshift: common BLAST hit: gi|67458618|ref|YP_246242.1| ATPase 1105104000440 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105104000441 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105104000442 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105104000443 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105104000444 active site 1105104000445 HIGH motif; other site 1105104000446 nucleotide binding site [chemical binding]; other site 1105104000447 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105104000448 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105104000449 active site 1105104000450 KMSKS motif; other site 1105104000451 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105104000452 tRNA binding surface [nucleotide binding]; other site 1105104000453 anticodon binding site; other site 1105104000454 potential frameshift: common BLAST hit: gi|350273815|ref|YP_004885128.1| transposase 1105104000455 potential frameshift: common BLAST hit: gi|67458622|ref|YP_246246.1| transposase 1105104000456 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105104000457 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105104000458 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104000459 thymidylate kinase; Validated; Region: tmk; PRK00698 1105104000460 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 1105104000461 TMP-binding site; other site 1105104000462 ATP-binding site [chemical binding]; other site 1105104000463 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105104000464 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105104000465 HIGH motif; other site 1105104000466 active site 1105104000467 KMSKS motif; other site 1105104000468 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105104000469 tRNA binding surface [nucleotide binding]; other site 1105104000470 anticodon binding site; other site 1105104000471 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105104000472 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105104000473 active site 1105104000474 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105104000475 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105104000476 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105104000477 Protein of unknown function (DUF511); Region: DUF511; cl01114 1105104000478 potential frameshift: common BLAST hit: gi|157964831|ref|YP_001499655.1| Poly-beta-hydroxyalkanoate depolymerase 1105104000479 potential frameshift: common BLAST hit: gi|15892963|ref|NP_360677.1| mannose-1-phosphate guanylyltransferase 1105104000480 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000481 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105104000482 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 1105104000483 active site 1105104000484 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1105104000485 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1105104000486 DNA binding site [nucleotide binding] 1105104000487 catalytic residue [active] 1105104000488 H2TH interface [polypeptide binding]; other site 1105104000489 putative catalytic residues [active] 1105104000490 turnover-facilitating residue; other site 1105104000491 intercalation triad [nucleotide binding]; other site 1105104000492 8OG recognition residue [nucleotide binding]; other site 1105104000493 putative reading head residues; other site 1105104000494 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1105104000495 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1105104000496 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105104000497 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 1105104000498 S-adenosylmethionine binding site [chemical binding]; other site 1105104000499 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105104000500 ABC1 family; Region: ABC1; pfam03109 1105104000501 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 1105104000502 active site 1105104000503 ATP binding site [chemical binding]; other site 1105104000504 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105104000505 AAA domain; Region: AAA_14; pfam13173 1105104000506 GTP-binding protein Der; Reviewed; Region: PRK00093 1105104000507 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105104000508 G1 box; other site 1105104000509 GTP/Mg2+ binding site [chemical binding]; other site 1105104000510 Switch I region; other site 1105104000511 G2 box; other site 1105104000512 Switch II region; other site 1105104000513 G3 box; other site 1105104000514 G4 box; other site 1105104000515 G5 box; other site 1105104000516 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105104000517 G1 box; other site 1105104000518 GTP/Mg2+ binding site [chemical binding]; other site 1105104000519 Switch I region; other site 1105104000520 G2 box; other site 1105104000521 G3 box; other site 1105104000522 Switch II region; other site 1105104000523 G4 box; other site 1105104000524 G5 box; other site 1105104000525 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105104000526 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 1105104000527 putative catalytic site [active] 1105104000528 putative phosphate binding site [ion binding]; other site 1105104000529 active site 1105104000530 metal binding site A [ion binding]; metal-binding site 1105104000531 DNA binding site [nucleotide binding] 1105104000532 putative AP binding site [nucleotide binding]; other site 1105104000533 putative metal binding site B [ion binding]; other site 1105104000534 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105104000535 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 1105104000536 generic binding surface II; other site 1105104000537 generic binding surface I; other site 1105104000538 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105104000539 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105104000540 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105104000541 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105104000542 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 1105104000543 S-adenosylmethionine binding site [chemical binding]; other site 1105104000544 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 1105104000545 DNA-binding site [nucleotide binding]; DNA binding site 1105104000546 RNA-binding motif; other site 1105104000547 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1105104000548 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1105104000549 ATP binding site [chemical binding]; other site 1105104000550 Mg++ binding site [ion binding]; other site 1105104000551 motif III; other site 1105104000552 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 1105104000553 nucleotide binding region [chemical binding]; other site 1105104000554 ATP-binding site [chemical binding]; other site 1105104000555 muropeptide transporter; Validated; Region: ampG; cl17669 1105104000556 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105104000557 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105104000558 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 1105104000559 secondary substrate binding site; other site 1105104000560 primary substrate binding site; other site 1105104000561 inhibition loop; other site 1105104000562 cell division protein FtsZ; Validated; Region: PRK09330 1105104000563 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 1105104000564 nucleotide binding site [chemical binding]; other site 1105104000565 SulA interaction site; other site 1105104000566 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1105104000567 putative active site [active] 1105104000568 homotetrameric interface [polypeptide binding]; other site 1105104000569 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1105104000570 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105104000571 Class II fumarases; Region: Fumarase_classII; cd01362 1105104000572 active site 1105104000573 tetramer interface [polypeptide binding]; other site 1105104000574 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105104000575 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105104000576 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105104000577 elongation factor Tu; Reviewed; Region: PRK00049 1105104000578 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105104000579 G1 box; other site 1105104000580 GEF interaction site [polypeptide binding]; other site 1105104000581 GTP/Mg2+ binding site [chemical binding]; other site 1105104000582 Switch I region; other site 1105104000583 G2 box; other site 1105104000584 G3 box; other site 1105104000585 Switch II region; other site 1105104000586 G4 box; other site 1105104000587 G5 box; other site 1105104000588 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 1105104000589 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 1105104000590 Antibiotic Binding Site [chemical binding]; other site 1105104000591 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000592 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105104000593 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105104000594 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105104000595 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105104000596 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105104000597 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105104000598 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105104000599 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105104000600 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 1105104000601 putative translocon binding site; other site 1105104000602 protein-rRNA interface [nucleotide binding]; other site 1105104000603 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1105104000604 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 1105104000605 G-X-X-G motif; other site 1105104000606 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105104000607 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 1105104000608 23S rRNA interface [nucleotide binding]; other site 1105104000609 5S rRNA interface [nucleotide binding]; other site 1105104000610 putative antibiotic binding site [chemical binding]; other site 1105104000611 L25 interface [polypeptide binding]; other site 1105104000612 L27 interface [polypeptide binding]; other site 1105104000613 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 1105104000614 L23 interface [polypeptide binding]; other site 1105104000615 trigger factor interaction site; other site 1105104000616 23S rRNA interface [nucleotide binding]; other site 1105104000617 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105104000618 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105104000619 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105104000620 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105104000621 RNA binding site [nucleotide binding]; other site 1105104000622 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105104000623 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105104000624 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105104000625 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105104000626 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105104000627 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105104000628 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105104000629 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105104000630 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 1105104000631 5S rRNA interface [nucleotide binding]; other site 1105104000632 23S rRNA interface [nucleotide binding]; other site 1105104000633 L5 interface [polypeptide binding]; other site 1105104000634 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105104000635 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105104000636 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105104000637 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 1105104000638 23S rRNA binding site [nucleotide binding]; other site 1105104000639 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105104000640 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105104000641 SecY translocase; Region: SecY; pfam00344 1105104000642 adenylate kinase; Reviewed; Region: adk; PRK00279 1105104000643 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 1105104000644 AMP-binding site [chemical binding]; other site 1105104000645 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105104000646 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105104000647 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105104000648 30S ribosomal protein S11; Validated; Region: PRK05309 1105104000649 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105104000650 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105104000651 alphaNTD - beta interaction site [polypeptide binding]; other site 1105104000652 alphaNTD homodimer interface [polypeptide binding]; other site 1105104000653 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105104000654 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105104000655 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105104000656 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105104000657 HD domain; Region: HD_4; pfam13328 1105104000658 potential frameshift: common BLAST hit: gi|67458789|ref|YP_246413.1| MFS type sugar transporter 1105104000659 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104000660 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105104000661 hypothetical protein; Validated; Region: PRK06620 1105104000662 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105104000663 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105104000664 GrpE; Region: GrpE; pfam01025 1105104000665 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 1105104000666 dimer interface [polypeptide binding]; other site 1105104000667 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105104000668 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105104000669 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105104000670 hexamer interface [polypeptide binding]; other site 1105104000671 active site 1105104000672 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1105104000673 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 1105104000674 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 1105104000675 potential frameshift: common BLAST hit: gi|67458799|ref|YP_246423.1| glycosyltransferase 1105104000676 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 1105104000677 oligomerisation interface [polypeptide binding]; other site 1105104000678 mobile loop; other site 1105104000679 roof hairpin; other site 1105104000680 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105104000681 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 1105104000682 ring oligomerisation interface [polypeptide binding]; other site 1105104000683 ATP/Mg binding site [chemical binding]; other site 1105104000684 stacking interactions; other site 1105104000685 hinge regions; other site 1105104000686 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1105104000687 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105104000688 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105104000689 HIGH motif; other site 1105104000690 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105104000691 active site 1105104000692 KMSKS motif; other site 1105104000693 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000694 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105104000695 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000696 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 1105104000697 S-adenosylmethionine binding site [chemical binding]; other site 1105104000698 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105104000699 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 1105104000700 ABC-ATPase subunit interface; other site 1105104000701 dimer interface [polypeptide binding]; other site 1105104000702 putative PBP binding regions; other site 1105104000703 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1105104000704 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105104000705 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 1105104000706 putative substrate translocation pore; other site 1105104000707 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105104000708 putative acyl-acceptor binding pocket; other site 1105104000709 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105104000710 acyl-activating enzyme (AAE) consensus motif; other site 1105104000711 putative AMP binding site [chemical binding]; other site 1105104000712 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105104000713 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105104000714 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105104000715 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105104000716 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105104000717 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105104000718 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105104000719 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 1105104000720 carboxyltransferase (CT) interaction site; other site 1105104000721 biotinylation site [posttranslational modification]; other site 1105104000722 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1105104000723 TPR motif; other site 1105104000724 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105104000725 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105104000726 HIGH motif; other site 1105104000727 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105104000728 active site 1105104000729 KMSKS motif; other site 1105104000730 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105104000731 tRNA binding surface [nucleotide binding]; other site 1105104000732 anticodon binding site; other site 1105104000733 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105104000734 COQ9; Region: COQ9; pfam08511 1105104000735 Ribosomal protein S21 [Translation, ribosomal structure and biogenesis]; Region: RpsU; COG0828 1105104000736 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105104000737 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 1105104000738 dimerization interface [polypeptide binding]; other site 1105104000739 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 1105104000740 dimer interface [polypeptide binding]; other site 1105104000741 phosphorylation site [posttranslational modification] 1105104000742 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 1105104000743 ATP binding site [chemical binding]; other site 1105104000744 Mg2+ binding site [ion binding]; other site 1105104000745 G-X-G motif; other site 1105104000746 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1105104000747 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1105104000748 Phosphotransferase enzyme family; Region: APH; pfam01636 1105104000749 active site 1105104000750 ATP binding site [chemical binding]; other site 1105104000751 substrate binding site [chemical binding]; other site 1105104000752 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1105104000753 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1105104000754 Cl binding site [ion binding]; other site 1105104000755 oligomer interface [polypeptide binding]; other site 1105104000756 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105104000757 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1105104000758 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105104000759 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105104000760 23S rRNA binding site [nucleotide binding]; other site 1105104000761 L21 binding site [polypeptide binding]; other site 1105104000762 L13 binding site [polypeptide binding]; other site 1105104000763 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105104000764 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105104000765 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 1105104000766 FeS/SAM binding site; other site 1105104000767 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105104000768 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105104000769 5S rRNA interface [nucleotide binding]; other site 1105104000770 CTC domain interface [polypeptide binding]; other site 1105104000771 L16 interface [polypeptide binding]; other site 1105104000772 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 1105104000773 putative active site [active] 1105104000774 catalytic residue [active] 1105104000775 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105104000776 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105104000777 YchF GTPase; Region: YchF; cd01900 1105104000778 G1 box; other site 1105104000779 GTP/Mg2+ binding site [chemical binding]; other site 1105104000780 Switch I region; other site 1105104000781 G2 box; other site 1105104000782 Switch II region; other site 1105104000783 G3 box; other site 1105104000784 G4 box; other site 1105104000785 G5 box; other site 1105104000786 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 1105104000787 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1105104000788 metal binding triad [ion binding]; metal-binding site 1105104000789 HEPN domain; Region: HEPN; cl00824 1105104000790 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105104000791 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105104000792 Patatin [General function prediction only]; Region: COG3621 1105104000793 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105104000794 active site 1105104000795 nucleophile elbow; other site 1105104000796 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105104000797 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105104000798 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 1105104000799 Walker A motif; other site 1105104000800 ATP binding site [chemical binding]; other site 1105104000801 Walker B motif; other site 1105104000802 arginine finger; other site 1105104000803 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 1105104000804 DnaA box-binding interface [nucleotide binding]; other site 1105104000805 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 1105104000806 active site residue [active] 1105104000807 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105104000808 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1105104000809 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1105104000810 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 1105104000811 ATP binding site [chemical binding]; other site 1105104000812 putative Mg++ binding site [ion binding]; other site 1105104000813 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 1105104000814 nucleotide binding region [chemical binding]; other site 1105104000815 ATP-binding site [chemical binding]; other site 1105104000816 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1105104000817 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1105104000818 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105104000819 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105104000820 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105104000821 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1105104000822 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105104000823 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105104000824 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105104000825 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105104000826 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 1105104000827 Mg++ binding site [ion binding]; other site 1105104000828 putative catalytic motif [active] 1105104000829 putative substrate binding site [chemical binding]; other site 1105104000830 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1105104000831 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1105104000832 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1105104000833 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105104000834 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 1105104000835 ssDNA binding site; other site 1105104000836 generic binding surface II; other site 1105104000837 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 1105104000838 ATP binding site [chemical binding]; other site 1105104000839 putative Mg++ binding site [ion binding]; other site 1105104000840 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 1105104000841 nucleotide binding region [chemical binding]; other site 1105104000842 ATP-binding site [chemical binding]; other site 1105104000843 TraX protein; Region: TraX; pfam05857 1105104000844 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000845 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1105104000846 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105104000847 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 1105104000848 dimer interface [polypeptide binding]; other site 1105104000849 substrate binding site [chemical binding]; other site 1105104000850 metal binding sites [ion binding]; metal-binding site 1105104000851 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1105104000852 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105104000853 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 1105104000854 Cu(I) binding site [ion binding]; other site 1105104000855 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105104000856 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105104000857 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105104000858 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105104000859 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 1105104000860 potential frameshift: common BLAST hit: gi|67459346|ref|YP_246970.1| proline/betaine transporter 1105104000861 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105104000862 HD domain; Region: HD_4; pfam13328 1105104000863 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105104000864 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105104000865 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 1105104000866 Divalent cation transporter; Region: MgtE; pfam01769 1105104000867 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105104000868 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1105104000869 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 1105104000870 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105104000871 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 1105104000872 ATP binding site [chemical binding]; other site 1105104000873 Mg2+ binding site [ion binding]; other site 1105104000874 G-X-G motif; other site 1105104000875 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 1105104000876 anchoring element; other site 1105104000877 dimer interface [polypeptide binding]; other site 1105104000878 ATP binding site [chemical binding]; other site 1105104000879 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 1105104000880 active site 1105104000881 putative metal-binding site [ion binding]; other site 1105104000882 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105104000883 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105104000884 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 1105104000885 hinge; other site 1105104000886 active site 1105104000887 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105104000888 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105104000889 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 1105104000890 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105104000891 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105104000892 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105104000893 ATP binding site [chemical binding]; other site 1105104000894 putative Mg++ binding site [ion binding]; other site 1105104000895 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105104000896 SEC-C motif; Region: SEC-C; pfam02810 1105104000897 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 1105104000898 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105104000899 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1105104000900 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1105104000901 DNA binding site [nucleotide binding] 1105104000902 active site 1105104000903 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1105104000904 potential frameshift: common BLAST hit: gi|67459307|ref|YP_246931.1| methylated-DNA--protein-cysteine methyltransferase 1105104000905 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1105104000906 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1105104000907 active site 1105104000908 DNA binding site [nucleotide binding] 1105104000909 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1105104000910 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1105104000911 active site 1105104000912 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105104000913 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105104000914 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105104000915 GIY-YIG motif/motif A; other site 1105104000916 active site 1105104000917 catalytic site [active] 1105104000918 putative DNA binding site [nucleotide binding]; other site 1105104000919 metal binding site [ion binding]; metal-binding site 1105104000920 UvrB/uvrC motif; Region: UVR; pfam02151 1105104000921 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105104000922 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105104000923 Na binding site [ion binding]; other site 1105104000924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105104000925 MraZ protein; Region: MraZ; pfam02381 1105104000926 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105104000927 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 1105104000928 S-adenosylmethionine binding site [chemical binding]; other site 1105104000929 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105104000930 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105104000931 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105104000932 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105104000933 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105104000934 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105104000935 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105104000936 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1105104000937 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105104000938 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105104000939 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105104000940 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105104000941 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 1105104000942 active site 1105104000943 phosphorylation site [posttranslational modification] 1105104000944 intermolecular recognition site; other site 1105104000945 dimerization interface [polypeptide binding]; other site 1105104000946 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 1105104000947 Walker A motif; other site 1105104000948 ATP binding site [chemical binding]; other site 1105104000949 Walker B motif; other site 1105104000950 arginine finger; other site 1105104000951 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105104000952 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105104000953 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104000954 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105104000955 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105104000956 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1105104000957 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1105104000958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1105104000959 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105104000960 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105104000961 active site 1105104000962 HIGH motif; other site 1105104000963 dimer interface [polypeptide binding]; other site 1105104000964 KMSKS motif; other site 1105104000965 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 1105104000966 RNA binding surface [nucleotide binding]; other site 1105104000967 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105104000968 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 1105104000969 RNA binding surface [nucleotide binding]; other site 1105104000970 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105104000971 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105104000972 Transcriptional regulator; Region: Rrf2; cl17282 1105104000973 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1105104000974 NAD binding pocket [chemical binding]; other site 1105104000975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105104000976 Sm and related proteins; Region: Sm_like; cl00259 1105104000977 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105104000978 putative oligomer interface [polypeptide binding]; other site 1105104000979 putative RNA binding site [nucleotide binding]; other site 1105104000980 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105104000981 NusA N-terminal domain; Region: NusA_N; pfam08529 1105104000982 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 1105104000983 RNA binding site [nucleotide binding]; other site 1105104000984 homodimer interface [polypeptide binding]; other site 1105104000985 NusA-like KH domain; Region: KH_5; pfam13184 1105104000986 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 1105104000987 G-X-X-G motif; other site 1105104000988 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105104000989 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105104000990 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105104000991 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105104000992 G1 box; other site 1105104000993 putative GEF interaction site [polypeptide binding]; other site 1105104000994 GTP/Mg2+ binding site [chemical binding]; other site 1105104000995 Switch I region; other site 1105104000996 G2 box; other site 1105104000997 G3 box; other site 1105104000998 Switch II region; other site 1105104000999 G4 box; other site 1105104001000 G5 box; other site 1105104001001 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 1105104001002 Translation-initiation factor 2; Region: IF-2; pfam11987 1105104001003 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 1105104001004 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105104001005 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105104001006 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105104001007 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105104001008 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105104001009 DNA repair protein RadA; Provisional; Region: PRK11823 1105104001010 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1105104001011 Walker A motif/ATP binding site; other site 1105104001012 ATP binding site [chemical binding]; other site 1105104001013 Walker B motif; other site 1105104001014 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105104001015 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105104001016 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1105104001017 S-adenosylmethionine binding site [chemical binding]; other site 1105104001018 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105104001019 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105104001020 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105104001021 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105104001022 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105104001023 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105104001024 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 1105104001025 RNA binding surface [nucleotide binding]; other site 1105104001026 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1105104001027 active site 1105104001028 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1105104001029 aromatic amino acid transport protein; Region: araaP; TIGR00837 1105104001030 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1105104001031 replicative DNA helicase; Provisional; Region: PRK09165 1105104001032 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105104001033 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 1105104001034 Walker A motif; other site 1105104001035 ATP binding site [chemical binding]; other site 1105104001036 Walker B motif; other site 1105104001037 DNA binding loops [nucleotide binding] 1105104001038 SacI restriction endonuclease; Region: RE_SacI; pfam09566 1105104001039 aromatic acid decarboxylase; Validated; Region: PRK05920 1105104001040 Flavoprotein; Region: Flavoprotein; pfam02441 1105104001041 primosome assembly protein PriA; Validated; Region: PRK05580 1105104001042 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 1105104001043 ATP binding site [chemical binding]; other site 1105104001044 putative Mg++ binding site [ion binding]; other site 1105104001045 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105104001046 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 1105104001047 dimer interface [polypeptide binding]; other site 1105104001048 allosteric magnesium binding site [ion binding]; other site 1105104001049 active site 1105104001050 aspartate-rich active site metal binding site; other site 1105104001051 Schiff base residues; other site 1105104001052 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00196 1105104001053 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104001054 AAA domain; Region: AAA_17; pfam13207 1105104001055 AAA domain; Region: AAA_18; pfam13238 1105104001056 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1105104001057 Coenzyme A binding pocket [chemical binding]; other site 1105104001058 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1105104001059 active site 1105104001060 homodimer interface [polypeptide binding]; other site 1105104001061 putative chemical substrate binding site [chemical binding]; other site 1105104001062 metal binding site [ion binding]; metal-binding site 1105104001063 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105104001064 Substrate binding site; other site 1105104001065 Mg++ binding site; other site 1105104001066 hypothetical protein; Validated; Region: PRK00110 1105104001067 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105104001068 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105104001069 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 1105104001070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105104001071 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105104001072 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1105104001073 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1105104001074 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105104001075 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 1105104001076 S-adenosylmethionine binding site [chemical binding]; other site 1105104001077 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1105104001078 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1105104001079 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105104001080 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105104001081 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105104001082 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105104001083 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105104001084 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105104001085 catalytic site [active] 1105104001086 putative active site [active] 1105104001087 putative substrate binding site [chemical binding]; other site 1105104001088 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105104001089 Uncharacterized conserved protein [Function unknown]; Region: COG1723 1105104001090 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1105104001091 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1105104001092 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105104001093 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105104001094 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 1105104001095 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105104001096 potential frameshift: common BLAST hit: gi|15892625|ref|NP_360339.1| sodium/pantothenate symporter 1105104001097 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 1105104001098 dimer interface [polypeptide binding]; other site 1105104001099 phosphorylation site [posttranslational modification] 1105104001100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1105104001101 G-X-G motif; other site 1105104001102 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105104001103 dimer interface [polypeptide binding]; other site 1105104001104 catalytic triad [active] 1105104001105 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105104001106 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 1105104001107 domain interfaces; other site 1105104001108 active site 1105104001109 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 1105104001110 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1105104001111 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1105104001112 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 1105104001113 non-specific DNA binding site [nucleotide binding]; other site 1105104001114 salt bridge; other site 1105104001115 sequence-specific DNA binding site [nucleotide binding]; other site 1105104001116 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105104001117 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 1105104001118 CMP-binding site; other site 1105104001119 The sites determining sugar specificity; other site 1105104001120 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105104001121 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 1105104001122 RNA binding site [nucleotide binding]; other site 1105104001123 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 1105104001124 RNA binding site [nucleotide binding]; other site 1105104001125 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 1105104001126 RNA binding site [nucleotide binding]; other site 1105104001127 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 1105104001128 RNA binding site [nucleotide binding]; other site 1105104001129 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 1105104001130 RNA binding site [nucleotide binding]; other site 1105104001131 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 1105104001132 RNA binding site [nucleotide binding]; other site 1105104001133 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105104001134 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105104001135 oligomer interface [polypeptide binding]; other site 1105104001136 active site residues [active] 1105104001137 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105104001138 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 1105104001139 homotetramer interface [polypeptide binding]; other site 1105104001140 FMN binding site [chemical binding]; other site 1105104001141 homodimer contacts [polypeptide binding]; other site 1105104001142 putative active site [active] 1105104001143 putative substrate binding site [chemical binding]; other site 1105104001144 Predicted acetyltransferase [General function prediction only]; Region: COG5628 1105104001145 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1105104001146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1105104001147 Coenzyme A binding pocket [chemical binding]; other site 1105104001148 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1105104001149 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1105104001150 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105104001151 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1105104001152 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105104001153 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105104001154 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105104001155 catalytic residue [active] 1105104001156 cysteine desulfurase; Provisional; Region: PRK14012 1105104001157 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105104001158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105104001159 catalytic residue [active] 1105104001160 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105104001161 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105104001162 trimerization site [polypeptide binding]; other site 1105104001163 active site 1105104001164 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1105104001165 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105104001166 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105104001167 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105104001168 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 1105104001169 active site 1105104001170 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105104001171 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105104001172 substrate binding pocket [chemical binding]; other site 1105104001173 chain length determination region; other site 1105104001174 substrate-Mg2+ binding site; other site 1105104001175 catalytic residues [active] 1105104001176 aspartate-rich region 1; other site 1105104001177 active site lid residues [active] 1105104001178 aspartate-rich region 2; other site 1105104001179 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105104001180 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1105104001181 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 1105104001182 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1105104001183 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1105104001184 AmpG-like permease; Region: 2A0125; TIGR00901 1105104001185 Lysine efflux permease [General function prediction only]; Region: COG1279 1105104001186 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1105104001187 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 1105104001188 active site 1105104001189 Rickettsial palindromic element RPE2 domain; Region: RPE2; TIGR03774 1105104001190 HemY protein N-terminus; Region: HemY_N; pfam07219 1105104001191 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105104001192 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105104001193 RelB antitoxin; Region: RelB; cl01171 1105104001194 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105104001195 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105104001196 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105104001197 putative acyl-acceptor binding pocket; other site 1105104001198 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105104001199 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105104001200 active site 1105104001201 HIGH motif; other site 1105104001202 dimer interface [polypeptide binding]; other site 1105104001203 KMSKS motif; other site 1105104001204 hypothetical protein; Region: PHA00670 1105104001205 hypothetical protein; Region: PHA00670 1105104001206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 1105104001207 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105104001208 IHF - DNA interface [nucleotide binding]; other site 1105104001209 IHF dimer interface [polypeptide binding]; other site 1105104001210 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105104001211 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105104001212 tandem repeat interface [polypeptide binding]; other site 1105104001213 oligomer interface [polypeptide binding]; other site 1105104001214 active site residues [active] 1105104001215 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105104001216 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105104001217 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 1105104001218 RNA binding site [nucleotide binding]; other site 1105104001219 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 1105104001220 multimer interface [polypeptide binding]; other site 1105104001221 Walker A motif; other site 1105104001222 ATP binding site [chemical binding]; other site 1105104001223 Walker B motif; other site 1105104001224 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 1105104001225 S-adenosylmethionine binding site [chemical binding]; other site 1105104001226 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105104001227 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105104001228 DHH family; Region: DHH; pfam01368 1105104001229 DHHA1 domain; Region: DHHA1; pfam02272 1105104001230 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105104001231 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105104001232 RF-1 domain; Region: RF-1; pfam00472 1105104001233 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 1105104001234 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105104001235 E3 interaction surface; other site 1105104001236 lipoyl attachment site [posttranslational modification]; other site 1105104001237 e3 binding domain; Region: E3_binding; pfam02817 1105104001238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105104001239 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105104001240 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105104001241 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105104001242 Predicted membrane protein [Function unknown]; Region: COG5346 1105104001243 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1105104001244 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1105104001245 Uncharacterized conserved protein [Function unknown]; Region: COG5448 1105104001246 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105104001247 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105104001248 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105104001249 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105104001250 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105104001251 potential frameshift: common BLAST hit: gi|157964571|ref|YP_001499395.1| putative esterase of the alpha/beta hydrolase superfamily protein 1105104001252 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105104001253 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105104001254 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105104001255 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1105104001256 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105104001257 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1105104001258 conserved cys residue [active] 1105104001259 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105104001260 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 1105104001261 GSH binding site (G-site) [chemical binding]; other site 1105104001262 C-terminal domain interface [polypeptide binding]; other site 1105104001263 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105104001264 N-terminal domain interface [polypeptide binding]; other site 1105104001265 dimer interface [polypeptide binding]; other site 1105104001266 substrate binding pocket (H-site) [chemical binding]; other site 1105104001267 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1105104001268 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105104001269 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105104001270 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105104001271 hypothetical protein; Provisional; Region: PRK06661 1105104001272 intersubunit interface [polypeptide binding]; other site 1105104001273 active site 1105104001274 Zn2+ binding site [ion binding]; other site 1105104001275 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 1105104001276 putative active site [active] 1105104001277 homotetrameric interface [polypeptide binding]; other site 1105104001278 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104001279 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; cl00234 1105104001280 catalytic residues [active] 1105104001281 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105104001282 uncharacterized protein, YfiH family; Region: TIGR00726 1105104001283 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1105104001284 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105104001285 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105104001286 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105104001287 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 1105104001288 non-specific DNA binding site [nucleotide binding]; other site 1105104001289 salt bridge; other site 1105104001290 sequence-specific DNA binding site [nucleotide binding]; other site 1105104001291 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105104001292 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105104001293 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK14846 1105104001294 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105104001295 RNA binding site [nucleotide binding]; other site 1105104001296 active site 1105104001297 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104001298 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 1105104001299 16S/18S rRNA binding site [nucleotide binding]; other site 1105104001300 S13e-L30e interaction site [polypeptide binding]; other site 1105104001301 25S rRNA binding site [nucleotide binding]; other site 1105104001302 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105104001303 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1105104001304 RNase E interface [polypeptide binding]; other site 1105104001305 trimer interface [polypeptide binding]; other site 1105104001306 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105104001307 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105104001308 RNase E interface [polypeptide binding]; other site 1105104001309 trimer interface [polypeptide binding]; other site 1105104001310 active site 1105104001311 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 1105104001312 putative nucleic acid binding region [nucleotide binding]; other site 1105104001313 G-X-X-G motif; other site 1105104001314 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 1105104001315 RNA binding site [nucleotide binding]; other site 1105104001316 domain interface; other site 1105104001317 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1105104001318 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 1105104001319 putative active site [active] 1105104001320 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 1105104001321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105104001322 OstA-like protein; Region: OstA; pfam03968 1105104001323 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105104001324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104001325 Walker A/P-loop; other site 1105104001326 ATP binding site [chemical binding]; other site 1105104001327 Q-loop/lid; other site 1105104001328 ABC transporter signature motif; other site 1105104001329 Walker B; other site 1105104001330 D-loop; other site 1105104001331 H-loop/switch region; other site 1105104001332 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105104001333 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 1105104001334 active site 1105104001335 substrate binding site [chemical binding]; other site 1105104001336 metal binding site [ion binding]; metal-binding site 1105104001337 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1105104001338 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1105104001339 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105104001340 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105104001341 dimer interface [polypeptide binding]; other site 1105104001342 putative radical transfer pathway; other site 1105104001343 diiron center [ion binding]; other site 1105104001344 tyrosyl radical; other site 1105104001345 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105104001346 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105104001347 active site 1105104001348 dimer interface [polypeptide binding]; other site 1105104001349 catalytic residues [active] 1105104001350 effector binding site; other site 1105104001351 R2 peptide binding site; other site 1105104001352 Spore Coat Protein U domain; Region: SCPU; pfam05229 1105104001353 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1105104001354 potential frameshift: common BLAST hit: gi|67459098|ref|YP_246722.1| P pilus assembly protein FimD 1105104001355 potential frameshift: common BLAST hit: gi|91205792|ref|YP_538147.1| P pilus assembly, fimbrial usher protein 1105104001356 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1105104001357 potential frameshift: common BLAST hit: gi|165933233|ref|YP_001650022.1| protein U 1105104001358 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105104001359 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105104001360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105104001361 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105104001362 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105104001363 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105104001364 homodimer interface [polypeptide binding]; other site 1105104001365 NADP binding site [chemical binding]; other site 1105104001366 substrate binding site [chemical binding]; other site 1105104001367 potential frameshift: common BLAST hit: gi|229586740|ref|YP_002845241.1| Carbonic anhydrases/acetyltransferase, isoleucine patch superfamily 1105104001368 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 1105104001369 30S subunit binding site; other site 1105104001370 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105104001371 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105104001372 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 1105104001373 Walker A motif; other site 1105104001374 ATP binding site [chemical binding]; other site 1105104001375 Walker B motif; other site 1105104001376 arginine finger; other site 1105104001377 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105104001378 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105104001379 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 1105104001380 tetramer interface [polypeptide binding]; other site 1105104001381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105104001382 catalytic residue [active] 1105104001383 Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: AlaS; COG0013 1105104001384 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105104001385 Part of AAA domain; Region: AAA_19; pfam13245 1105104001386 Family description; Region: UvrD_C_2; pfam13538 1105104001387 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105104001388 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 1105104001389 active site 1105104001390 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1105104001391 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1105104001392 tetramerization interface [polypeptide binding]; other site 1105104001393 NAD(P) binding site [chemical binding]; other site 1105104001394 catalytic residues [active] 1105104001395 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105104001396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105104001397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105104001398 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105104001399 Predicted permeases [General function prediction only]; Region: COG0679 1105104001400 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105104001401 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105104001402 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105104001403 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105104001404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105104001405 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105104001406 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105104001407 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105104001408 RecR protein; Region: RecR; pfam02132 1105104001409 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 1105104001410 putative active site [active] 1105104001411 putative metal-binding site [ion binding]; other site 1105104001412 tetramer interface [polypeptide binding]; other site 1105104001413 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105104001414 Predicted membrane protein [Function unknown]; Region: COG1238 1105104001415 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105104001416 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1105104001417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105104001418 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1105104001419 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105104001420 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1105104001421 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1105104001422 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1105104001423 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105104001424 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105104001425 CoA-ligase; Region: Ligase_CoA; pfam00549 1105104001426 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105104001427 CoA binding domain; Region: CoA_binding; pfam02629 1105104001428 CoA-ligase; Region: Ligase_CoA; pfam00549 1105104001429 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 1105104001430 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105104001431 catalytic residues [active] 1105104001432 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 1105104001433 SmpB-tmRNA interface; other site 1105104001434 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105104001435 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105104001436 dimer interface [polypeptide binding]; other site 1105104001437 active site 1105104001438 catalytic residue [active] 1105104001439 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105104001440 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 1105104001441 homodimer interface [polypeptide binding]; other site 1105104001442 substrate-cofactor binding pocket; other site 1105104001443 catalytic residue [active] 1105104001444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105104001445 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 1105104001446 active site 1105104001447 phosphorylation site [posttranslational modification] 1105104001448 intermolecular recognition site; other site 1105104001449 dimerization interface [polypeptide binding]; other site 1105104001450 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 1105104001451 DNA binding site [nucleotide binding] 1105104001452 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105104001453 HAMP domain; Region: HAMP; pfam00672 1105104001454 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 1105104001455 dimer interface [polypeptide binding]; other site 1105104001456 phosphorylation site [posttranslational modification] 1105104001457 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 1105104001458 ATP binding site [chemical binding]; other site 1105104001459 Mg2+ binding site [ion binding]; other site 1105104001460 G-X-G motif; other site 1105104001461 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 1105104001462 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1105104001463 catalytic residue [active] 1105104001464 putative FPP diphosphate binding site; other site 1105104001465 putative FPP binding hydrophobic cleft; other site 1105104001466 dimer interface [polypeptide binding]; other site 1105104001467 putative IPP diphosphate binding site; other site 1105104001468 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105104001469 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105104001470 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105104001471 Septum formation initiator; Region: DivIC; pfam04977 1105104001472 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105104001473 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105104001474 catalytic site [active] 1105104001475 putative active site [active] 1105104001476 putative substrate binding site [chemical binding]; other site 1105104001477 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105104001478 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105104001479 HIGH motif; other site 1105104001480 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105104001481 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105104001482 active site 1105104001483 KMSKS motif; other site 1105104001484 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105104001485 tRNA binding surface [nucleotide binding]; other site 1105104001486 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105104001487 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1105104001488 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 1105104001489 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 1105104001490 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105104001491 putative DNA binding surface [nucleotide binding]; other site 1105104001492 dimer interface [polypeptide binding]; other site 1105104001493 beta-clamp/clamp loader binding surface; other site 1105104001494 beta-clamp/translesion DNA polymerase binding surface; other site 1105104001495 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105104001496 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 1105104001497 putative tRNA-binding site [nucleotide binding]; other site 1105104001498 B3/4 domain; Region: B3_4; pfam03483 1105104001499 tRNA synthetase B5 domain; Region: B5; smart00874 1105104001500 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 1105104001501 dimer interface [polypeptide binding]; other site 1105104001502 motif 1; other site 1105104001503 motif 3; other site 1105104001504 motif 2; other site 1105104001505 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105104001506 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105104001507 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105104001508 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 1105104001509 dimer interface [polypeptide binding]; other site 1105104001510 motif 1; other site 1105104001511 active site 1105104001512 motif 2; other site 1105104001513 motif 3; other site 1105104001514 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105104001515 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105104001516 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 1105104001517 FeS/SAM binding site; other site 1105104001518 diaminopimelate epimerase; Region: DapF; TIGR00652 1105104001519 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105104001520 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105104001521 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104001522 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104001523 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104001524 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105104001525 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 1105104001526 potential frameshift: common BLAST hit: gi|67459035|ref|YP_246659.1| RND efflux system, outer membrane protein 1105104001527 potential frameshift: common BLAST hit: gi|67459034|ref|YP_246658.1| RND family transporter membrane-fusion protein 1105104001528 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105104001529 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105104001530 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1105104001531 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105104001532 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105104001533 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1105104001534 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 1105104001535 active site 1105104001536 homodimer interface [polypeptide binding]; other site 1105104001537 cell division protein FtsW; Region: ftsW; TIGR02614 1105104001538 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105104001539 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105104001540 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105104001541 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105104001542 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1105104001543 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105104001544 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105104001545 putative peptidase; Provisional; Region: PRK11649 1105104001546 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105104001547 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104001548 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105104001549 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 1105104001550 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105104001551 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1105104001552 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1105104001553 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 1105104001554 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 1105104001555 Subunit I/III interface [polypeptide binding]; other site 1105104001556 D-pathway; other site 1105104001557 Subunit I/VIIc interface [polypeptide binding]; other site 1105104001558 Subunit I/IV interface [polypeptide binding]; other site 1105104001559 Subunit I/II interface [polypeptide binding]; other site 1105104001560 Low-spin heme (heme a) binding site [chemical binding]; other site 1105104001561 Subunit I/VIIa interface [polypeptide binding]; other site 1105104001562 Subunit I/VIa interface [polypeptide binding]; other site 1105104001563 Dimer interface; other site 1105104001564 Putative water exit pathway; other site 1105104001565 Binuclear center (heme a3/CuB) [ion binding]; other site 1105104001566 K-pathway; other site 1105104001567 Subunit I/Vb interface [polypeptide binding]; other site 1105104001568 Putative proton exit pathway; other site 1105104001569 Subunit I/VIb interface; other site 1105104001570 Subunit I/VIc interface [polypeptide binding]; other site 1105104001571 Electron transfer pathway; other site 1105104001572 Subunit I/VIIIb interface [polypeptide binding]; other site 1105104001573 Subunit I/VIIb interface [polypeptide binding]; other site 1105104001574 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105104001575 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105104001576 catalytic triad [active] 1105104001577 Rickettsial palindromic element RPE4 domain; Region: RPE4; TIGR03777 1105104001578 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105104001579 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105104001580 dimer interface [polypeptide binding]; other site 1105104001581 catalytic triad [active] 1105104001582 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105104001583 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 1105104001584 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105104001585 catalytic residue [active] 1105104001586 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105104001587 trimer interface [polypeptide binding]; other site 1105104001588 active site 1105104001589 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105104001590 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105104001591 tandem repeat interface [polypeptide binding]; other site 1105104001592 oligomer interface [polypeptide binding]; other site 1105104001593 active site residues [active] 1105104001594 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 1105104001595 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105104001596 catalytic residues [active] 1105104001597 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105104001598 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 1105104001599 active site 1105104001600 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105104001601 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105104001602 Iron permease FTR1 family; Region: FTR1; cl00475 1105104001603 Intracellular septation protein A [Cell division and chromosome partitioning]; Region: COG2917 1105104001604 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105104001605 BON domain; Region: BON; pfam04972 1105104001606 BON domain; Region: BON; pfam04972 1105104001607 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104001608 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105104001609 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105104001610 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105104001611 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105104001612 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105104001613 muropeptide transporter; Validated; Region: ampG; cl17669 1105104001614 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1105104001615 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105104001616 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105104001617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104001618 Walker A/P-loop; other site 1105104001619 ATP binding site [chemical binding]; other site 1105104001620 Q-loop/lid; other site 1105104001621 ABC transporter signature motif; other site 1105104001622 Walker B; other site 1105104001623 D-loop; other site 1105104001624 H-loop/switch region; other site 1105104001625 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105104001626 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 1105104001627 Walker A motif; other site 1105104001628 ATP binding site [chemical binding]; other site 1105104001629 Walker B motif; other site 1105104001630 arginine finger; other site 1105104001631 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105104001632 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105104001633 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105104001634 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105104001635 Fic family protein [Function unknown]; Region: COG3177 1105104001636 Fic/DOC family; Region: Fic; pfam02661 1105104001637 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105104001638 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 1105104001639 dimer interface [polypeptide binding]; other site 1105104001640 motif 1; other site 1105104001641 active site 1105104001642 motif 2; other site 1105104001643 motif 3; other site 1105104001644 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 1105104001645 anticodon binding site; other site 1105104001646 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105104001647 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105104001648 active site 1105104001649 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1105104001650 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105104001651 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105104001652 Ligand binding site; other site 1105104001653 oligomer interface; other site 1105104001654 CTP synthetase; Validated; Region: pyrG; PRK05380 1105104001655 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 1105104001656 Catalytic site [active] 1105104001657 active site 1105104001658 UTP binding site [chemical binding]; other site 1105104001659 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105104001660 active site 1105104001661 putative oxyanion hole; other site 1105104001662 catalytic triad [active] 1105104001663 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105104001664 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; cl02529 1105104001665 malate dehydrogenase; Reviewed; Region: PRK06223 1105104001666 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105104001667 NAD(P) binding site [chemical binding]; other site 1105104001668 dimer interface [polypeptide binding]; other site 1105104001669 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105104001670 substrate binding site [chemical binding]; other site 1105104001671 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104001672 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 1105104001673 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 1105104001674 putative active site [active] 1105104001675 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105104001676 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105104001677 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105104001678 putative NAD(P) binding site [chemical binding]; other site 1105104001679 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105104001680 Predicted permeases [General function prediction only]; Region: COG0679 1105104001681 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105104001682 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105104001683 active site 1105104001684 HIGH motif; other site 1105104001685 KMSKS motif; other site 1105104001686 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105104001687 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 1105104001688 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105104001689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104001690 Walker A/P-loop; other site 1105104001691 ATP binding site [chemical binding]; other site 1105104001692 Q-loop/lid; other site 1105104001693 ABC transporter signature motif; other site 1105104001694 Walker B; other site 1105104001695 D-loop; other site 1105104001696 H-loop/switch region; other site 1105104001697 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 1105104001698 TM-ABC transporter signature motif; other site 1105104001699 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 1105104001700 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1105104001701 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1105104001702 amidase catalytic site [active] 1105104001703 Zn binding residues [ion binding]; other site 1105104001704 substrate binding site [chemical binding]; other site 1105104001705 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1105104001706 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105104001707 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105104001708 putative active site [active] 1105104001709 catalytic triad [active] 1105104001710 putative dimer interface [polypeptide binding]; other site 1105104001711 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105104001712 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105104001713 NAD binding site [chemical binding]; other site 1105104001714 homotetramer interface [polypeptide binding]; other site 1105104001715 homodimer interface [polypeptide binding]; other site 1105104001716 substrate binding site [chemical binding]; other site 1105104001717 active site 1105104001718 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105104001719 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 1105104001720 active site 1105104001721 DNA binding site [nucleotide binding] 1105104001722 Int/Topo IB signature motif; other site 1105104001723 potential frameshift: common BLAST hit: gi|67458962|ref|YP_246586.1| phage protein 1105104001724 potential frameshift: common BLAST hit: gi|67458962|ref|YP_246586.1| phage protein 1105104001725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105104001726 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105104001727 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105104001728 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105104001729 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105104001730 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105104001731 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1105104001732 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105104001733 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105104001734 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 1105104001735 putative dimer interface [polypeptide binding]; other site 1105104001736 [2Fe-2S] cluster binding site [ion binding]; other site 1105104001737 hypothetical protein; Provisional; Region: PRK14388 1105104001738 YCII-related domain; Region: YCII; cl00999 1105104001739 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105104001740 active site 1105104001741 DNA binding site [nucleotide binding] 1105104001742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1105104001743 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1105104001744 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105104001745 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105104001746 RimM N-terminal domain; Region: RimM; pfam01782 1105104001747 PRC-barrel domain; Region: PRC; pfam05239 1105104001748 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105104001749 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105104001750 TPR repeat; Region: TPR_11; pfam13414 1105104001751 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1105104001752 TPR motif; other site 1105104001753 binding surface 1105104001754 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 1105104001755 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1105104001756 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 1105104001757 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105104001758 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105104001759 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105104001760 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105104001761 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 1105104001762 RNA binding surface [nucleotide binding]; other site 1105104001763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104001764 Walker A/P-loop; other site 1105104001765 ATP binding site [chemical binding]; other site 1105104001766 Q-loop/lid; other site 1105104001767 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105104001768 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 1105104001769 putative ADP-binding pocket [chemical binding]; other site 1105104001770 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105104001771 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105104001772 catalytic site [active] 1105104001773 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105104001774 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1105104001775 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105104001776 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105104001777 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105104001778 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 1105104001779 active site 1105104001780 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105104001781 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1105104001782 active site 1105104001783 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105104001784 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 1105104001785 S-adenosylmethionine binding site [chemical binding]; other site 1105104001786 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105104001787 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 1105104001788 active site 1105104001789 homodimer interface [polypeptide binding]; other site 1105104001790 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105104001791 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105104001792 NAD(P) binding site [chemical binding]; other site 1105104001793 homodimer interface [polypeptide binding]; other site 1105104001794 substrate binding site [chemical binding]; other site 1105104001795 active site 1105104001796 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105104001797 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105104001798 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105104001799 NADP binding site [chemical binding]; other site 1105104001800 active site 1105104001801 putative substrate binding site [chemical binding]; other site 1105104001802 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 1105104001803 sequence-specific DNA binding site [nucleotide binding]; other site 1105104001804 salt bridge; other site 1105104001805 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105104001806 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105104001807 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105104001808 Sulfatase; Region: Sulfatase; pfam00884 1105104001809 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105104001810 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 1105104001811 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105104001812 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 1105104001813 dimer interface [polypeptide binding]; other site 1105104001814 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105104001815 catalytic triad [active] 1105104001816 peroxidatic and resolving cysteines [active] 1105104001817 DNA protecting protein DprA; Region: dprA; TIGR00732 1105104001818 DNA protecting protein DprA; Region: dprA; TIGR00732 1105104001819 DNA topoisomerase I; Validated; Region: PRK06599 1105104001820 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 1105104001821 active site 1105104001822 interdomain interaction site; other site 1105104001823 putative metal-binding site [ion binding]; other site 1105104001824 nucleotide binding site [chemical binding]; other site 1105104001825 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 1105104001826 domain I; other site 1105104001827 DNA binding groove [nucleotide binding] 1105104001828 phosphate binding site [ion binding]; other site 1105104001829 domain II; other site 1105104001830 domain III; other site 1105104001831 nucleotide binding site [chemical binding]; other site 1105104001832 catalytic site [active] 1105104001833 domain IV; other site 1105104001834 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105104001835 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1105104001836 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105104001837 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105104001838 HIGH motif; other site 1105104001839 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105104001840 active site 1105104001841 KMSKS motif; other site 1105104001842 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 1105104001843 putative iron binding site [ion binding]; other site 1105104001844 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105104001845 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105104001846 dimerization interface [polypeptide binding]; other site 1105104001847 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1105104001848 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105104001849 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105104001850 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1105104001851 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104001852 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104001853 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1105104001854 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1105104001855 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1105104001856 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1105104001857 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1105104001858 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105104001859 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 1105104001860 Walker A motif; other site 1105104001861 ATP binding site [chemical binding]; other site 1105104001862 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105104001863 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105104001864 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 1105104001865 active site 1105104001866 HslU subunit interaction site [polypeptide binding]; other site 1105104001867 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105104001868 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1105104001869 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 1105104001870 nucleotide binding site/active site [active] 1105104001871 HIT family signature motif; other site 1105104001872 catalytic residue [active] 1105104001873 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105104001874 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105104001875 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105104001876 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105104001877 Walker A/P-loop; other site 1105104001878 ATP binding site [chemical binding]; other site 1105104001879 Q-loop/lid; other site 1105104001880 ABC transporter signature motif; other site 1105104001881 Walker B; other site 1105104001882 D-loop; other site 1105104001883 H-loop/switch region; other site 1105104001884 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105104001885 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 1105104001886 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105104001887 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 1105104001888 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104001889 putative substrate translocation pore; other site 1105104001890 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105104001891 HD domain; Region: HD_4; pfam13328 1105104001892 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105104001893 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105104001894 TolR protein; Region: tolR; TIGR02801 1105104001895 TolQ protein; Region: tolQ; TIGR02796 1105104001896 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105104001897 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104001898 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1105104001899 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104001900 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105104001901 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 1105104001902 dimer interface [polypeptide binding]; other site 1105104001903 motif 1; other site 1105104001904 active site 1105104001905 motif 2; other site 1105104001906 motif 3; other site 1105104001907 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 1105104001908 anticodon binding site; other site 1105104001909 amino acid transporter; Region: 2A0306; TIGR00909 1105104001910 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1105104001911 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 1105104001912 Ligand Binding Site [chemical binding]; other site 1105104001913 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105104001914 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105104001915 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105104001916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105104001917 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 1105104001918 DNA binding residues [nucleotide binding] 1105104001919 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105104001920 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105104001921 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105104001922 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105104001923 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105104001924 Protein of unknown function DUF45; Region: DUF45; pfam01863 1105104001925 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105104001926 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1105104001927 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105104001928 MutS domain I; Region: MutS_I; pfam01624 1105104001929 MutS domain II; Region: MutS_II; pfam05188 1105104001930 MutS domain III; Region: MutS_III; pfam05192 1105104001931 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105104001932 Walker A/P-loop; other site 1105104001933 ATP binding site [chemical binding]; other site 1105104001934 Q-loop/lid; other site 1105104001935 ABC transporter signature motif; other site 1105104001936 Walker B; other site 1105104001937 D-loop; other site 1105104001938 H-loop/switch region; other site 1105104001939 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105104001940 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 1105104001941 active site 1105104001942 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105104001943 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105104001944 Phage portal protein; Region: Phage_portal; pfam04860 1105104001945 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1105104001946 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105104001947 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105104001948 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105104001949 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 1105104001950 Walker A motif; other site 1105104001951 ATP binding site [chemical binding]; other site 1105104001952 Walker B motif; other site 1105104001953 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105104001954 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 1105104001955 Walker A motif; other site 1105104001956 hexamer interface [polypeptide binding]; other site 1105104001957 ATP binding site [chemical binding]; other site 1105104001958 Walker B motif; other site 1105104001959 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105104001960 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105104001961 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105104001962 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105104001963 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105104001964 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105104001965 VirB7 interaction site; other site 1105104001966 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105104001967 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1105104001968 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104001969 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105104001970 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104001971 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1105104001972 oligomeric interface; other site 1105104001973 putative active site [active] 1105104001974 homodimer interface [polypeptide binding]; other site 1105104001975 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105104001976 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105104001977 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105104001978 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105104001979 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105104001980 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105104001981 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104001982 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105104001983 HD domain; Region: HD_4; pfam13328 1105104001984 potential frameshift: common BLAST hit: gi|67459245|ref|YP_246869.1| NTPase 1105104001985 potential frameshift: common BLAST hit: gi|15892293|ref|NP_360007.1| ATP-dependent protease subunit C (ClpC) 1105104001986 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1105104001987 GTP-binding protein LepA; Provisional; Region: PRK05433 1105104001988 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105104001989 G1 box; other site 1105104001990 putative GEF interaction site [polypeptide binding]; other site 1105104001991 GTP/Mg2+ binding site [chemical binding]; other site 1105104001992 Switch I region; other site 1105104001993 G2 box; other site 1105104001994 G3 box; other site 1105104001995 Switch II region; other site 1105104001996 G4 box; other site 1105104001997 G5 box; other site 1105104001998 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 1105104001999 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 1105104002000 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105104002001 PCRF domain; Region: PCRF; pfam03462 1105104002002 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105104002003 RF-1 domain; Region: RF-1; pfam00472 1105104002004 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 1105104002005 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1105104002006 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105104002007 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 1105104002008 putative dimer interface [polypeptide binding]; other site 1105104002009 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105104002010 Cytochrome c; Region: Cytochrom_C; cl11414 1105104002011 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 1105104002012 catalytic site [active] 1105104002013 metal binding site [ion binding]; metal-binding site 1105104002014 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 1105104002015 Qi binding site; other site 1105104002016 cytochrome b; Provisional; Region: CYTB; MTH00191 1105104002017 intrachain domain interface; other site 1105104002018 interchain domain interface [polypeptide binding]; other site 1105104002019 heme bH binding site [chemical binding]; other site 1105104002020 heme bL binding site [chemical binding]; other site 1105104002021 Qo binding site; other site 1105104002022 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 1105104002023 interchain domain interface [polypeptide binding]; other site 1105104002024 intrachain domain interface; other site 1105104002025 Qi binding site; other site 1105104002026 Qo binding site; other site 1105104002027 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105104002028 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105104002029 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 1105104002030 [2Fe-2S] cluster binding site [ion binding]; other site 1105104002031 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105104002032 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105104002033 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105104002034 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105104002035 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1105104002036 isocitrate dehydrogenase; Validated; Region: PRK09222 1105104002037 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1105104002038 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1105104002039 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1105104002040 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105104002041 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105104002042 G1 box; other site 1105104002043 putative GEF interaction site [polypeptide binding]; other site 1105104002044 GTP/Mg2+ binding site [chemical binding]; other site 1105104002045 Switch I region; other site 1105104002046 G2 box; other site 1105104002047 G3 box; other site 1105104002048 Switch II region; other site 1105104002049 G4 box; other site 1105104002050 G5 box; other site 1105104002051 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 1105104002052 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 1105104002053 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105104002054 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 1105104002055 alpha subunit interface [polypeptide binding]; other site 1105104002056 TPP binding site [chemical binding]; other site 1105104002057 heterodimer interface [polypeptide binding]; other site 1105104002058 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105104002059 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105104002060 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 1105104002061 tetramer interface [polypeptide binding]; other site 1105104002062 TPP-binding site [chemical binding]; other site 1105104002063 heterodimer interface [polypeptide binding]; other site 1105104002064 phosphorylation loop region [posttranslational modification] 1105104002065 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 1105104002066 putative catalytic site [active] 1105104002067 putative phosphate binding site [ion binding]; other site 1105104002068 active site 1105104002069 metal binding site A [ion binding]; metal-binding site 1105104002070 DNA binding site [nucleotide binding] 1105104002071 putative AP binding site [nucleotide binding]; other site 1105104002072 putative metal binding site B [ion binding]; other site 1105104002073 potential frameshift: common BLAST hit: gi|15892268|ref|NP_359982.1| penicillin-binding protein 4* 1105104002074 potential frameshift: common BLAST hit: gi|15892268|ref|NP_359982.1| penicillin-binding protein 4* 1105104002075 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105104002076 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 1105104002077 RNA binding surface [nucleotide binding]; other site 1105104002078 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105104002079 active site 1105104002080 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105104002081 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105104002082 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 1105104002083 RNA binding site [nucleotide binding]; other site 1105104002084 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 1105104002085 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1105104002086 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1105104002087 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105104002088 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105104002089 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105104002090 cell division protein FtsA; Region: ftsA; TIGR01174 1105104002091 Cell division protein FtsA; Region: FtsA; smart00842 1105104002092 Cell division protein FtsA; Region: FtsA; pfam14450 1105104002093 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105104002094 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105104002095 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105104002096 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105104002097 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105104002098 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105104002099 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105104002100 FAD binding domain; Region: FAD_binding_4; pfam01565 1105104002101 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105104002102 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105104002103 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105104002104 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105104002105 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105104002106 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 1105104002107 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105104002108 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1105104002109 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1105104002110 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105104002111 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105104002112 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105104002113 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105104002114 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105104002115 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105104002116 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105104002117 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 1105104002118 active site 1105104002119 elongation factor P; Validated; Region: PRK00529 1105104002120 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105104002121 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 1105104002122 RNA binding site [nucleotide binding]; other site 1105104002123 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 1105104002124 RNA binding site [nucleotide binding]; other site 1105104002125 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105104002126 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 1105104002127 active site 1105104002128 phosphorylation site [posttranslational modification] 1105104002129 intermolecular recognition site; other site 1105104002130 dimerization interface [polypeptide binding]; other site 1105104002131 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 1105104002132 active site 1105104002133 phosphorylation site [posttranslational modification] 1105104002134 intermolecular recognition site; other site 1105104002135 dimerization interface [polypeptide binding]; other site 1105104002136 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105104002137 metal binding site [ion binding]; metal-binding site 1105104002138 active site 1105104002139 I-site; other site 1105104002140 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 1105104002141 putative active site [active] 1105104002142 Ap4A binding site [chemical binding]; other site 1105104002143 nudix motif; other site 1105104002144 putative metal binding site [ion binding]; other site 1105104002145 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 1105104002146 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1105104002147 DCoH tetramer interaction site [polypeptide binding]; other site 1105104002148 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105104002149 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 1105104002150 23S rRNA interface [nucleotide binding]; other site 1105104002151 L3 interface [polypeptide binding]; other site 1105104002152 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105104002153 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105104002154 Trp docking motif [polypeptide binding]; other site 1105104002155 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105104002156 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1105104002157 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1105104002158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105104002159 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 1105104002160 dimer interface [polypeptide binding]; other site 1105104002161 phosphorylation site [posttranslational modification] 1105104002162 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 1105104002163 ATP binding site [chemical binding]; other site 1105104002164 Mg2+ binding site [ion binding]; other site 1105104002165 G-X-G motif; other site 1105104002166 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105104002167 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105104002168 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 1105104002169 protein binding site [polypeptide binding]; other site 1105104002170 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105104002171 Catalytic dyad [active] 1105104002172 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105104002173 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 1105104002174 ATP binding site [chemical binding]; other site 1105104002175 Mg2+ binding site [ion binding]; other site 1105104002176 G-X-G motif; other site 1105104002177 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 1105104002178 anchoring element; other site 1105104002179 dimer interface [polypeptide binding]; other site 1105104002180 ATP binding site [chemical binding]; other site 1105104002181 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 1105104002182 active site 1105104002183 metal binding site [ion binding]; metal-binding site 1105104002184 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105104002185 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 1105104002186 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105104002187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105104002188 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105104002189 V-type ATP synthase subunit I; Validated; Region: PRK05771 1105104002190 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105104002191 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 1105104002192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002193 H-loop/switch region; other site 1105104002194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002195 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105104002196 ABC transporter signature motif; other site 1105104002197 Walker B; other site 1105104002198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002199 Walker A/P-loop; other site 1105104002200 ATP binding site [chemical binding]; other site 1105104002201 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105104002202 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 1105104002203 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105104002204 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 1105104002205 active site 1105104002206 dimer interface [polypeptide binding]; other site 1105104002207 motif 1; other site 1105104002208 motif 2; other site 1105104002209 motif 3; other site 1105104002210 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 1105104002211 anticodon binding site; other site 1105104002212 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105104002213 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105104002214 ATP binding site [chemical binding]; other site 1105104002215 active site 1105104002216 substrate binding site [chemical binding]; other site 1105104002217 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105104002218 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105104002219 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105104002220 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105104002221 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105104002222 putative metal binding site; other site 1105104002223 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 1105104002224 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1105104002225 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105104002226 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105104002227 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105104002228 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105104002229 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105104002230 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105104002231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002232 Walker A/P-loop; other site 1105104002233 ATP binding site [chemical binding]; other site 1105104002234 Q-loop/lid; other site 1105104002235 ABC transporter signature motif; other site 1105104002236 Walker B; other site 1105104002237 D-loop; other site 1105104002238 H-loop/switch region; other site 1105104002239 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 1105104002240 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105104002241 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105104002242 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105104002243 Predicted ATPase [General function prediction only]; Region: COG1485 1105104002244 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 1105104002245 Walker A motif; other site 1105104002246 ATP binding site [chemical binding]; other site 1105104002247 Walker B motif; other site 1105104002248 Protein of unknown function (DUF563); Region: DUF563; cl15705 1105104002249 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105104002250 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105104002251 putative active site [active] 1105104002252 substrate binding site [chemical binding]; other site 1105104002253 putative cosubstrate binding site; other site 1105104002254 catalytic site [active] 1105104002255 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105104002256 substrate binding site [chemical binding]; other site 1105104002257 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 1105104002258 active site 1105104002259 catalytic residues [active] 1105104002260 metal binding site [ion binding]; metal-binding site 1105104002261 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1105104002262 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105104002263 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1105104002264 DNA gyrase subunit A; Validated; Region: PRK05560 1105104002265 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 1105104002266 CAP-like domain; other site 1105104002267 active site 1105104002268 primary dimer interface [polypeptide binding]; other site 1105104002269 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105104002270 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105104002271 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105104002272 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105104002273 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105104002274 Pleckstrin homology-like domain; Region: PH-like; cl17171 1105104002275 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105104002276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002277 Walker A/P-loop; other site 1105104002278 ATP binding site [chemical binding]; other site 1105104002279 Q-loop/lid; other site 1105104002280 potential frameshift: common BLAST hit: gi|157964270|ref|YP_001499094.1| multidrug resistance protein Atm1 1105104002281 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 1105104002282 GSH binding site [chemical binding]; other site 1105104002283 catalytic residues [active] 1105104002284 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105104002285 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 1105104002286 ATP binding site [chemical binding]; other site 1105104002287 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 1105104002288 nucleotide binding region [chemical binding]; other site 1105104002289 ATP-binding site [chemical binding]; other site 1105104002290 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105104002291 UvrB/uvrC motif; Region: UVR; pfam02151 1105104002292 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105104002293 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105104002294 active site 1105104002295 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105104002296 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 1105104002297 HSP70 interaction site [polypeptide binding]; other site 1105104002298 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105104002299 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105104002300 nucleotide binding site [chemical binding]; other site 1105104002301 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105104002302 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 1105104002303 catalytic loop [active] 1105104002304 iron binding site [ion binding]; other site 1105104002305 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105104002306 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105104002307 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 1105104002308 Ligand Binding Site [chemical binding]; other site 1105104002309 potential frameshift: common BLAST hit: gi|67459460|ref|YP_247084.1| cell surface antigen-like protein Sca8 1105104002310 potential frameshift: common BLAST hit: gi|67459460|ref|YP_247084.1| cell surface antigen-like protein Sca8 1105104002311 potential frameshift: common BLAST hit: gi|15892172|ref|NP_359886.1| bifunctional penicillin-binding protein 1C 1105104002312 potential frameshift: common BLAST hit: gi|229586439|ref|YP_002844940.1| Bifunctional penicillin-binding protein 1C 1105104002313 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1105104002314 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 1105104002315 trimer interface [polypeptide binding]; other site 1105104002316 active site 1105104002317 substrate binding site [chemical binding]; other site 1105104002318 CoA binding site [chemical binding]; other site 1105104002319 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105104002320 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105104002321 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 1105104002322 Subunit III/VIIa interface [polypeptide binding]; other site 1105104002323 Phospholipid binding site [chemical binding]; other site 1105104002324 Subunit I/III interface [polypeptide binding]; other site 1105104002325 Subunit III/VIb interface [polypeptide binding]; other site 1105104002326 Subunit III/VIa interface; other site 1105104002327 Subunit III/Vb interface [polypeptide binding]; other site 1105104002328 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105104002329 diiron binding motif [ion binding]; other site 1105104002330 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105104002331 Lipopolysaccharide-assembly; Region: LptE; cl01125 1105104002332 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105104002333 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105104002334 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 1105104002335 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105104002336 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105104002337 nucleotide binding site [chemical binding]; other site 1105104002338 chaperone protein DnaJ; Provisional; Region: PRK14300 1105104002339 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 1105104002340 HSP70 interaction site [polypeptide binding]; other site 1105104002341 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105104002342 substrate binding site [polypeptide binding]; other site 1105104002343 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105104002344 Zn binding sites [ion binding]; other site 1105104002345 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105104002346 dimer interface [polypeptide binding]; other site 1105104002347 ChaB; Region: ChaB; cl01887 1105104002348 ChaB; Region: ChaB; cl01887 1105104002349 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105104002350 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1105104002351 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105104002352 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105104002353 Walker A/P-loop; other site 1105104002354 ATP binding site [chemical binding]; other site 1105104002355 Q-loop/lid; other site 1105104002356 Allexivirus 40kDa protein; Region: Allexi_40kDa; pfam05549 1105104002357 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105104002358 ABC transporter signature motif; other site 1105104002359 Walker B; other site 1105104002360 D-loop; other site 1105104002361 H-loop/switch region; other site 1105104002362 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1105104002363 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1105104002364 active site 1105104002365 Zn binding site [ion binding]; other site 1105104002366 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105104002367 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 1105104002368 TPP-binding site [chemical binding]; other site 1105104002369 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105104002370 dimer interface [polypeptide binding]; other site 1105104002371 PYR/PP interface [polypeptide binding]; other site 1105104002372 TPP binding site [chemical binding]; other site 1105104002373 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105104002374 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 1105104002375 E3 interaction surface; other site 1105104002376 lipoyl attachment site [posttranslational modification]; other site 1105104002377 e3 binding domain; Region: E3_binding; pfam02817 1105104002378 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105104002379 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1105104002380 active site 1105104002381 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105104002382 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105104002383 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105104002384 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1105104002385 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 1105104002386 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105104002387 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105104002388 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 1105104002389 FeS/SAM binding site; other site 1105104002390 HemN C-terminal domain; Region: HemN_C; pfam06969 1105104002391 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105104002392 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105104002393 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105104002394 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105104002395 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105104002396 signal recognition particle protein; Provisional; Region: PRK10867 1105104002397 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105104002398 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 1105104002399 P loop; other site 1105104002400 GTP binding site [chemical binding]; other site 1105104002401 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105104002402 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105104002403 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 1105104002404 IHF dimer interface [polypeptide binding]; other site 1105104002405 IHF - DNA interface [nucleotide binding]; other site 1105104002406 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105104002407 Protein export membrane protein; Region: SecD_SecF; cl14618 1105104002408 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105104002409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1105104002410 RNA methyltransferase, RsmE family; Region: TIGR00046 1105104002411 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002412 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105104002413 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105104002414 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105104002415 putative coenzyme Q binding site [chemical binding]; other site 1105104002416 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105104002417 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 1105104002418 S-adenosylmethionine binding site [chemical binding]; other site 1105104002419 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1105104002420 putative RNA binding site [nucleotide binding]; other site 1105104002421 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105104002422 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 1105104002423 active site 1105104002424 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 1105104002425 protein binding site [polypeptide binding]; other site 1105104002426 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 1105104002427 putative substrate binding region [chemical binding]; other site 1105104002428 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105104002429 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105104002430 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105104002431 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105104002432 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105104002433 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105104002434 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105104002435 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105104002436 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105104002437 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 1105104002438 putative substrate translocation pore; other site 1105104002439 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 1105104002440 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105104002441 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 1105104002442 putative nucleotide binding site [chemical binding]; other site 1105104002443 uridine monophosphate binding site [chemical binding]; other site 1105104002444 homohexameric interface [polypeptide binding]; other site 1105104002445 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105104002446 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 1105104002447 hinge region; other site 1105104002448 Uncharacterized conserved protein [Function unknown]; Region: COG4997 1105104002449 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1105104002450 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105104002451 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105104002452 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105104002453 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105104002454 GatB domain; Region: GatB_Yqey; smart00845 1105104002455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105104002456 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 1105104002457 substrate binding pocket [chemical binding]; other site 1105104002458 membrane-bound complex binding site; other site 1105104002459 hinge residues; other site 1105104002460 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1105104002461 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105104002462 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105104002463 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105104002464 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105104002465 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105104002466 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105104002467 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 1105104002468 dimer interface [polypeptide binding]; other site 1105104002469 anticodon binding site; other site 1105104002470 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 1105104002471 homodimer interface [polypeptide binding]; other site 1105104002472 motif 1; other site 1105104002473 active site 1105104002474 motif 2; other site 1105104002475 GAD domain; Region: GAD; pfam02938 1105104002476 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 1105104002477 active site 1105104002478 motif 3; other site 1105104002479 ATPase MipZ; Region: MipZ; pfam09140 1105104002480 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 1105104002481 P-loop; other site 1105104002482 Magnesium ion binding site [ion binding]; other site 1105104002483 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 1105104002484 Magnesium ion binding site [ion binding]; other site 1105104002485 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105104002486 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 1105104002487 interface (dimer of trimers) [polypeptide binding]; other site 1105104002488 Substrate-binding/catalytic site; other site 1105104002489 Zn-binding sites [ion binding]; other site 1105104002490 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1105104002491 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002492 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105104002493 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105104002494 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105104002495 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105104002496 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105104002497 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105104002498 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105104002499 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105104002500 DNA binding site [nucleotide binding] 1105104002501 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105104002502 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105104002503 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 1105104002504 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105104002505 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 1105104002506 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1105104002507 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 1105104002508 RPB3 interaction site [polypeptide binding]; other site 1105104002509 RPB1 interaction site [polypeptide binding]; other site 1105104002510 RPB11 interaction site [polypeptide binding]; other site 1105104002511 RPB10 interaction site [polypeptide binding]; other site 1105104002512 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 1105104002513 core dimer interface [polypeptide binding]; other site 1105104002514 peripheral dimer interface [polypeptide binding]; other site 1105104002515 L10 interface [polypeptide binding]; other site 1105104002516 L11 interface [polypeptide binding]; other site 1105104002517 putative EF-Tu interaction site [polypeptide binding]; other site 1105104002518 putative EF-G interaction site [polypeptide binding]; other site 1105104002519 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 1105104002520 23S rRNA interface [nucleotide binding]; other site 1105104002521 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105104002522 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 1105104002523 mRNA/rRNA interface [nucleotide binding]; other site 1105104002524 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105104002525 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 1105104002526 23S rRNA interface [nucleotide binding]; other site 1105104002527 putative thiostrepton binding site; other site 1105104002528 L7/L12 interface [polypeptide binding]; other site 1105104002529 L25 interface [polypeptide binding]; other site 1105104002530 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1105104002531 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105104002532 putative homodimer interface [polypeptide binding]; other site 1105104002533 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105104002534 heterodimer interface [polypeptide binding]; other site 1105104002535 homodimer interface [polypeptide binding]; other site 1105104002536 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105104002537 elongation factor G; Reviewed; Region: PRK00007 1105104002538 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105104002539 G1 box; other site 1105104002540 putative GEF interaction site [polypeptide binding]; other site 1105104002541 GTP/Mg2+ binding site [chemical binding]; other site 1105104002542 Switch I region; other site 1105104002543 G2 box; other site 1105104002544 G3 box; other site 1105104002545 Switch II region; other site 1105104002546 G4 box; other site 1105104002547 G5 box; other site 1105104002548 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 1105104002549 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 1105104002550 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 1105104002551 30S ribosomal protein S7; Validated; Region: PRK05302 1105104002552 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 1105104002553 S17 interaction site [polypeptide binding]; other site 1105104002554 S8 interaction site; other site 1105104002555 16S rRNA interaction site [nucleotide binding]; other site 1105104002556 streptomycin interaction site [chemical binding]; other site 1105104002557 23S rRNA interaction site [nucleotide binding]; other site 1105104002558 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105104002559 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105104002560 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 1105104002561 dimer interface [polypeptide binding]; other site 1105104002562 conserved gate region; other site 1105104002563 putative PBP binding loops; other site 1105104002564 ABC-ATPase subunit interface; other site 1105104002565 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105104002566 L-aspartate oxidase; Provisional; Region: PRK06175 1105104002567 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105104002568 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 1105104002569 putative SdhC subunit interface [polypeptide binding]; other site 1105104002570 putative proximal heme binding site [chemical binding]; other site 1105104002571 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105104002572 putative proximal quinone binding site; other site 1105104002573 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 1105104002574 Iron-sulfur protein interface; other site 1105104002575 proximal quinone binding site [chemical binding]; other site 1105104002576 SdhD (CybS) interface [polypeptide binding]; other site 1105104002577 proximal heme binding site [chemical binding]; other site 1105104002578 hypothetical protein; Validated; Region: PRK01415 1105104002579 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105104002580 active site residue [active] 1105104002581 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105104002582 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105104002583 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 1105104002584 protein binding site [polypeptide binding]; other site 1105104002585 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 1105104002586 protein binding site [polypeptide binding]; other site 1105104002587 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105104002588 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 1105104002589 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 1105104002590 HflK protein; Region: hflK; TIGR01933 1105104002591 AAA domain; Region: AAA_31; pfam13614 1105104002592 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 1105104002593 Walker A motif; other site 1105104002594 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105104002595 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105104002596 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 1105104002597 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 1105104002598 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1105104002599 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1105104002600 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 1105104002601 active site 1105104002602 putative DNA-binding cleft [nucleotide binding]; other site 1105104002603 dimer interface [polypeptide binding]; other site 1105104002604 GTPase Era; Provisional; Region: era; PRK15494 1105104002605 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002606 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105104002607 G1 box; other site 1105104002608 GTP/Mg2+ binding site [chemical binding]; other site 1105104002609 Switch I region; other site 1105104002610 G2 box; other site 1105104002611 Switch II region; other site 1105104002612 G3 box; other site 1105104002613 G4 box; other site 1105104002614 G5 box; other site 1105104002615 KH domain; Region: KH_2; pfam07650 1105104002616 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105104002617 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 1105104002618 dimerization interface [polypeptide binding]; other site 1105104002619 active site 1105104002620 metal binding site [ion binding]; metal-binding site 1105104002621 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 1105104002622 dsRNA binding site [nucleotide binding]; other site 1105104002623 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105104002624 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 1105104002625 Catalytic site [active] 1105104002626 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 1105104002627 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105104002628 SLBB domain; Region: SLBB; pfam10531 1105104002629 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105104002630 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105104002631 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1105104002632 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105104002633 hypothetical protein; Provisional; Region: PRK13694 1105104002634 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105104002635 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105104002636 potential frameshift: common BLAST hit: gi|67458489|ref|YP_246113.1| acetate kinase 1105104002637 potential frameshift: common BLAST hit: gi|67458488|ref|YP_246112.1| phosphate acetyltransferase 1105104002638 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105104002639 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105104002640 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105104002641 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105104002642 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105104002643 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105104002644 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105104002645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002646 Walker A/P-loop; other site 1105104002647 ATP binding site [chemical binding]; other site 1105104002648 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105104002649 Acetylglutamate kinase [Amino acid transport and metabolism]; Region: ArgB; COG0548 1105104002650 nucleotide binding site [chemical binding]; other site 1105104002651 substrate binding site [chemical binding]; other site 1105104002652 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105104002653 G1 box; other site 1105104002654 GTP/Mg2+ binding site [chemical binding]; other site 1105104002655 Switch I region; other site 1105104002656 G2 box; other site 1105104002657 G3 box; other site 1105104002658 Switch II region; other site 1105104002659 G4 box; other site 1105104002660 G5 box; other site 1105104002661 50S ribosomal protein L31; Provisional; Region: PRK01397 1105104002662 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105104002663 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105104002664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002665 Walker A/P-loop; other site 1105104002666 ATP binding site [chemical binding]; other site 1105104002667 Q-loop/lid; other site 1105104002668 ABC transporter signature motif; other site 1105104002669 Walker B; other site 1105104002670 D-loop; other site 1105104002671 H-loop/switch region; other site 1105104002672 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105104002673 Permease; Region: Permease; pfam02405 1105104002674 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105104002675 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105104002676 active site 1105104002677 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105104002678 dimer interface [polypeptide binding]; other site 1105104002679 substrate binding site [chemical binding]; other site 1105104002680 catalytic residues [active] 1105104002681 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002682 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1105104002683 active site 1105104002684 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 1105104002685 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1105104002686 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105104002687 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105104002688 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105104002689 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1105104002690 binding surface 1105104002691 TPR motif; other site 1105104002692 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105104002693 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 1105104002694 S-adenosylmethionine binding site [chemical binding]; other site 1105104002695 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 1105104002696 aspartate aminotransferase; Provisional; Region: PRK05764 1105104002697 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 1105104002698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105104002699 homodimer interface [polypeptide binding]; other site 1105104002700 catalytic residue [active] 1105104002701 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105104002702 putative acyl-acceptor binding pocket; other site 1105104002703 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105104002704 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002705 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105104002706 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 1105104002707 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105104002708 UBA/TS-N domain; Region: UBA; pfam00627 1105104002709 Elongation factor TS; Region: EF_TS; pfam00889 1105104002710 Elongation factor TS; Region: EF_TS; pfam00889 1105104002711 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 1105104002712 rRNA interaction site [nucleotide binding]; other site 1105104002713 S8 interaction site; other site 1105104002714 putative laminin-1 binding site; other site 1105104002715 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105104002716 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105104002717 active site 1105104002718 HIGH motif; other site 1105104002719 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105104002720 KMSKS motif; other site 1105104002721 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105104002722 tRNA binding surface [nucleotide binding]; other site 1105104002723 anticodon binding site; other site 1105104002724 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105104002725 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105104002726 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 1105104002727 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104002728 putative substrate translocation pore; other site 1105104002729 EamA-like transporter family; Region: EamA; pfam00892 1105104002730 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105104002731 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105104002732 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105104002733 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105104002734 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 1105104002735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105104002736 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105104002737 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105104002738 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105104002739 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 1105104002740 active site 1105104002741 phosphorylation site [posttranslational modification] 1105104002742 intermolecular recognition site; other site 1105104002743 dimerization interface [polypeptide binding]; other site 1105104002744 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 1105104002745 DNA binding site [nucleotide binding] 1105104002746 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 1105104002747 SecA binding site; other site 1105104002748 Preprotein binding site; other site 1105104002749 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105104002750 trimer interface [polypeptide binding]; other site 1105104002751 active site 1105104002752 Gram-negative porin; Region: Porin_4; pfam13609 1105104002753 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1105104002754 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 1105104002755 CAP-like domain; other site 1105104002756 active site 1105104002757 primary dimer interface [polypeptide binding]; other site 1105104002758 Sporulation related domain; Region: SPOR; pfam05036 1105104002759 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105104002760 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105104002761 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105104002762 active site 1105104002763 HIGH motif; other site 1105104002764 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105104002765 KMSK motif region; other site 1105104002766 tRNA binding surface [nucleotide binding]; other site 1105104002767 DALR anticodon binding domain; Region: DALR_1; smart00836 1105104002768 anticodon binding site; other site 1105104002769 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105104002770 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105104002771 Zn2+ binding site [ion binding]; other site 1105104002772 Mg2+ binding site [ion binding]; other site 1105104002773 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105104002774 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1105104002775 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105104002776 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105104002777 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105104002778 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105104002779 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104002780 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104002781 ABC transporter; Region: ABC_tran_2; pfam12848 1105104002782 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105104002783 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 1105104002784 ParB-like nuclease domain; Region: ParB; smart00470 1105104002785 KorB domain; Region: KorB; pfam08535 1105104002786 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105104002787 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 1105104002788 P-loop; other site 1105104002789 Magnesium ion binding site [ion binding]; other site 1105104002790 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 1105104002791 Magnesium ion binding site [ion binding]; other site 1105104002792 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1105104002793 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1105104002794 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105104002795 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105104002796 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105104002797 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 1105104002798 active site 1105104002799 multimer interface [polypeptide binding]; other site 1105104002800 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105104002801 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 1105104002802 putative substrate translocation pore; other site 1105104002803 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105104002804 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 1105104002805 active site 1105104002806 catalytic residues [active] 1105104002807 metal binding site [ion binding]; metal-binding site 1105104002808 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1105104002809 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105104002810 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1105104002811 S-adenosylmethionine binding site [chemical binding]; other site 1105104002812 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105104002813 membrane protein insertase; Provisional; Region: PRK01318 1105104002814 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105104002815 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105104002816 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105104002817 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105104002818 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105104002819 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002820 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105104002821 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105104002822 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1105104002823 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1105104002824 cofactor binding site; other site 1105104002825 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105104002826 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105104002827 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 1105104002828 Walker A motif; other site 1105104002829 ATP binding site [chemical binding]; other site 1105104002830 Walker B motif; other site 1105104002831 arginine finger; other site 1105104002832 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105104002833 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105104002834 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 1105104002835 Ligand Binding Site [chemical binding]; other site 1105104002836 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105104002837 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105104002838 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105104002839 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105104002840 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105104002841 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105104002842 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 1105104002843 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 1105104002844 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105104002845 Di-iron ligands [ion binding]; other site 1105104002846 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 1105104002847 UGMP family protein; Validated; Region: PRK09604 1105104002848 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105104002849 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105104002850 Clp amino terminal domain; Region: Clp_N; pfam02861 1105104002851 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 1105104002852 Walker A motif; other site 1105104002853 ATP binding site [chemical binding]; other site 1105104002854 Walker B motif; other site 1105104002855 arginine finger; other site 1105104002856 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 1105104002857 Walker A motif; other site 1105104002858 ATP binding site [chemical binding]; other site 1105104002859 Walker B motif; other site 1105104002860 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105104002861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105104002862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105104002863 active site 1105104002864 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105104002865 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105104002866 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105104002867 Colicin V production protein; Region: Colicin_V; pfam02674 1105104002868 Putative transcriptional regulator [Transcription]; Region: COG1678 1105104002869 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105104002870 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 1105104002871 Cu(I) binding site [ion binding]; other site 1105104002872 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1105104002873 catalytic center binding site [active] 1105104002874 ATP binding site [chemical binding]; other site 1105104002875 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 1105104002876 substrate binding pocket [chemical binding]; other site 1105104002877 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1105104002878 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1105104002879 folate binding site [chemical binding]; other site 1105104002880 NADP+ binding site [chemical binding]; other site 1105104002881 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1105104002882 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105104002883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002884 Walker A/P-loop; other site 1105104002885 ATP binding site [chemical binding]; other site 1105104002886 Q-loop/lid; other site 1105104002887 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104002888 ABC transporter signature motif; other site 1105104002889 Walker B; other site 1105104002890 D-loop; other site 1105104002891 H-loop/switch region; other site 1105104002892 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105104002893 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 1105104002894 S-adenosylmethionine binding site [chemical binding]; other site 1105104002895 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105104002896 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105104002897 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105104002898 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1105104002899 Thioredoxin; Region: Thioredoxin_4; pfam13462 1105104002900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105104002901 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105104002902 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105104002903 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105104002904 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105104002905 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105104002906 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105104002907 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105104002908 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105104002909 AAA domain; Region: AAA_22; pfam13401 1105104002910 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105104002911 Competence protein; Region: Competence; pfam03772 1105104002912 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105104002913 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105104002914 active site 1105104002915 NTP binding site [chemical binding]; other site 1105104002916 metal binding triad [ion binding]; metal-binding site 1105104002917 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105104002918 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105104002919 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1105104002920 intersubunit interface [polypeptide binding]; other site 1105104002921 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105104002922 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105104002923 NodB motif; other site 1105104002924 putative active site [active] 1105104002925 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105104002926 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 1105104002927 FMN binding site [chemical binding]; other site 1105104002928 active site 1105104002929 catalytic residues [active] 1105104002930 substrate binding site [chemical binding]; other site 1105104002931 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1105104002932 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1105104002933 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1105104002934 active site 1105104002935 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1105104002936 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105104002937 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 1105104002938 trimer interface [polypeptide binding]; other site 1105104002939 active site 1105104002940 UDP-GlcNAc binding site [chemical binding]; other site 1105104002941 lipid binding site [chemical binding]; lipid-binding site 1105104002942 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 1105104002943 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105104002944 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 1105104002945 active site 1105104002946 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 1105104002947 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105104002948 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105104002949 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 1105104002950 FAD binding pocket [chemical binding]; other site 1105104002951 FAD binding motif [chemical binding]; other site 1105104002952 phosphate binding motif [ion binding]; other site 1105104002953 beta-alpha-beta structure motif; other site 1105104002954 NAD binding pocket [chemical binding]; other site 1105104002955 Iron coordination center [ion binding]; other site 1105104002956 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105104002957 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1105104002958 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105104002959 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105104002960 Walker A/P-loop; other site 1105104002961 ATP binding site [chemical binding]; other site 1105104002962 Q-loop/lid; other site 1105104002963 ABC transporter signature motif; other site 1105104002964 Walker B; other site 1105104002965 D-loop; other site 1105104002966 H-loop/switch region; other site 1105104002967 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 1105104002968 catalytic residues [active] 1105104002969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105104002970 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1105104002971 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 1105104002972 substrate binding site [chemical binding]; other site 1105104002973 active site 1105104002974 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105104002975 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 1105104002976 C-terminal domain interface [polypeptide binding]; other site 1105104002977 active site 1105104002978 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 1105104002979 active site 1105104002980 N-terminal domain interface [polypeptide binding]; other site 1105104002981 TIGR00701 family protein; Region: TIGR00701 1105104002982 potential frameshift: common BLAST hit: gi|67459789|ref|YP_247413.1| prophage antirepressor 1105104002983 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105104002984 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105104002985 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 1105104002986 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105104002987 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 1105104002988 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1105104002989 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1105104002990 TPR motif; other site 1105104002991 TPR repeat; Region: TPR_11; pfam13414 1105104002992 binding surface 1105104002993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1105104002994 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105104002995 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 1105104002996 ATP binding site [chemical binding]; other site 1105104002997 Mg2+ binding site [ion binding]; other site 1105104002998 G-X-G motif; other site 1105104002999 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 1105104003000 ATP binding site [chemical binding]; other site 1105104003001 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105104003002 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105104003003 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105104003004 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1105104003005 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1105104003006 amidase catalytic site [active] 1105104003007 Zn binding residues [ion binding]; other site 1105104003008 substrate binding site [chemical binding]; other site 1105104003009 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1105104003010 lipoate-protein ligase B; Provisional; Region: PRK14347 1105104003011 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105104003012 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 1105104003013 putative active site [active] 1105104003014 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 1105104003015 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1105104003016 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1105104003017 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1105104003018 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1105104003019 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1105104003020 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1105104003021 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105104003022 metal binding site [ion binding]; metal-binding site 1105104003023 dimer interface [polypeptide binding]; other site 1105104003024 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105104003025 Predicted permeases [General function prediction only]; Region: COG0795 1105104003026 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105104003027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1105104003028 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1105104003029 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 1105104003030 active site 1105104003031 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105104003032 putative hydrolase; Provisional; Region: PRK02113 1105104003033 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105104003034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105104003035 Walker A/P-loop; other site 1105104003036 ATP binding site [chemical binding]; other site 1105104003037 Q-loop/lid; other site 1105104003038 ABC transporter signature motif; other site 1105104003039 Walker B; other site 1105104003040 D-loop; other site 1105104003041 H-loop/switch region; other site 1105104003042 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1105104003043 Beta-lactamase; Region: Beta-lactamase; cl17358 1105104003044 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105104003045 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105104003046 catalytic motif [active] 1105104003047 Catalytic residue [active] 1105104003048 hypothetical protein; Validated; Region: PRK00153 1105104003049 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105104003050 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 1105104003051 Walker A motif; other site 1105104003052 ATP binding site [chemical binding]; other site 1105104003053 Walker B motif; other site 1105104003054 arginine finger; other site 1105104003055 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105104003056 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1105104003057 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105104003058 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105104003059 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105104003060 ligand binding site [chemical binding]; other site 1105104003061 homodimer interface [polypeptide binding]; other site 1105104003062 NAD(P) binding site [chemical binding]; other site 1105104003063 trimer interface B [polypeptide binding]; other site 1105104003064 trimer interface A [polypeptide binding]; other site 1105104003065 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105104003066 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105104003067 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105104003068 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105104003069 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105104003070 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105104003071 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105104003072 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105104003073 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105104003074 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 1105104003075 active site 1105104003076 metal binding site [ion binding]; metal-binding site 1105104003077 interdomain interaction site; other site 1105104003078 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105104003079 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105104003080 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105104003081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105104003082 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105104003083 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 1105104003084 DNA binding residues [nucleotide binding] 1105104003085 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105104003086 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105104003087 dimerization interface 3.5A [polypeptide binding]; other site 1105104003088 active site 1105104003089 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105104003090 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 1105104003091 motif 1; other site 1105104003092 active site 1105104003093 motif 2; other site 1105104003094 motif 3; other site 1105104003095 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105104003096 potential frameshift: common BLAST hit: gi|341584467|ref|YP_004764958.1| proline/betaine transporter 1105104003097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105104003098 prevent-host-death family protein; Region: phd_fam; TIGR01552 1105104003099 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1105104003100 oligomeric interface; other site 1105104003101 putative active site [active] 1105104003102 homodimer interface [polypeptide binding]; other site 1105104003103 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105104003104 motif 1; other site 1105104003105 dimer interface [polypeptide binding]; other site 1105104003106 active site 1105104003107 motif 2; other site 1105104003108 motif 3; other site 1105104003109 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105104003110 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105104003111 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105104003112 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105104003113 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105104003114 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 1105104003115 S-adenosylmethionine binding site [chemical binding]; other site 1105104003116 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105104003117 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105104003118 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 1105104003119 RNA binding surface [nucleotide binding]; other site 1105104003120 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105104003121 active site 1105104003122 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105104003123 Fe-S cluster binding site [ion binding]; other site 1105104003124 active site 1105104003125 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1105104003126 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 1105104003127 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105104003128 dimer interface [polypeptide binding]; other site 1105104003129 active site 1105104003130 citrylCoA binding site [chemical binding]; other site 1105104003131 NADH binding [chemical binding]; other site 1105104003132 cationic pore residues; other site 1105104003133 oxalacetate/citrate binding site [chemical binding]; other site 1105104003134 coenzyme A binding site [chemical binding]; other site 1105104003135 catalytic triad [active] 1105104003136 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1105104003137 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105104003138 Obg GTPase; Region: Obg; cd01898 1105104003139 G1 box; other site 1105104003140 GTP/Mg2+ binding site [chemical binding]; other site 1105104003141 Switch I region; other site 1105104003142 G2 box; other site 1105104003143 G3 box; other site 1105104003144 Switch II region; other site 1105104003145 G4 box; other site 1105104003146 G5 box; other site 1105104003147 trigger factor; Provisional; Region: tig; PRK01490 1105104003148 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105104003149 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105104003150 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105104003151 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 1105104003152 substrate-cofactor binding pocket; other site 1105104003153 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105104003154 catalytic residue [active] 1105104003155 heat shock protein 90; Provisional; Region: PRK05218 1105104003156 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 1105104003157 ATP binding site [chemical binding]; other site 1105104003158 Mg2+ binding site [ion binding]; other site 1105104003159 G-X-G motif; other site 1105104003160 hypothetical protein; Reviewed; Region: PRK01530 1105104003161 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1105104003162 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1105104003163 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105104003164 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 1105104003165 dimer interface [polypeptide binding]; other site 1105104003166 ssDNA binding site [nucleotide binding]; other site 1105104003167 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105104003168 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105104003169 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105104003170 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105104003171 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105104003172 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105104003173 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105104003174 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1105104003175 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105104003176 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105104003177 Cation efflux family; Region: Cation_efflux; cl00316 1105104003178 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 1105104003179 nucleoside/Zn binding site; other site 1105104003180 dimer interface [polypeptide binding]; other site 1105104003181 catalytic motif [active] 1105104003182 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1105104003183 Ferredoxin [Energy production and conversion]; Region: COG1146 1105104003184 4Fe-4S binding domain; Region: Fer4; cl02805 1105104003185 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105104003186 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105104003187 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105104003188 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105104003189 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 1105104003190 Mg++ binding site [ion binding]; other site 1105104003191 putative catalytic motif [active] 1105104003192 putative substrate binding site [chemical binding]; other site 1105104003193 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1105104003194 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1105104003195 MPN+ (JAMM) motif; other site 1105104003196 Zinc-binding site [ion binding]; other site 1105104003197 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1105104003198 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 1105104003199 active site 1105104003200 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1105104003201 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105104003202 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105104003203 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105104003204 potential frameshift: common BLAST hit: gi|157964970|ref|YP_001499794.1| ankyrin repeat-containing protein