-- dump date 20140620_034158 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1105097000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1806 1105097000002 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 1105097000003 catalytic residues [active] 1105097000004 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1105097000005 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1105097000006 Walker A/P-loop; other site 1105097000007 ATP binding site [chemical binding]; other site 1105097000008 Q-loop/lid; other site 1105097000009 ABC transporter signature motif; other site 1105097000010 Walker B; other site 1105097000011 D-loop; other site 1105097000012 H-loop/switch region; other site 1105097000013 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1105097000014 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1105097000015 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 1105097000016 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 1105097000017 FAD binding pocket [chemical binding]; other site 1105097000018 FAD binding motif [chemical binding]; other site 1105097000019 phosphate binding motif [ion binding]; other site 1105097000020 beta-alpha-beta structure motif; other site 1105097000021 NAD binding pocket [chemical binding]; other site 1105097000022 Iron coordination center [ion binding]; other site 1105097000023 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1105097000024 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 1105097000025 active site 1105097000026 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 1105097000027 UDP-3-O-[3-hydroxymyristoyl]; Region: LpxD; COG1044 1105097000028 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1105097000029 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 1105097000030 trimer interface [polypeptide binding]; other site 1105097000031 active site 1105097000032 UDP-GlcNAc binding site [chemical binding]; other site 1105097000033 lipid binding site [chemical binding]; lipid-binding site 1105097000034 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1105097000035 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 1105097000036 FMN binding site [chemical binding]; other site 1105097000037 active site 1105097000038 catalytic residues [active] 1105097000039 substrate binding site [chemical binding]; other site 1105097000040 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105097000041 Putative catalytic NodB homology domain of uncharacterized protein RC0012 from Rickettsia conorii and its bacterial homologs; Region: CE4_RC0012_like; cd10963 1105097000042 NodB motif; other site 1105097000043 putative active site [active] 1105097000044 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1105097000045 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1105097000046 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 1105097000047 putative ligand binding site [chemical binding]; other site 1105097000048 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1105097000049 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1105097000050 active site 1105097000051 NTP binding site [chemical binding]; other site 1105097000052 metal binding triad [ion binding]; metal-binding site 1105097000053 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1105097000054 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105097000055 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105097000056 F0F1 ATP synthase subunit B; Validated; Region: PRK06568 1105097000057 F0F1 ATP synthase subunit B'; Validated; Region: PRK06569 1105097000058 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1105097000059 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1105097000060 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1105097000061 ATP synthase subunit 6 (eukaryotes),also subunit A (prokaryotes); Region: ATP_synt_6_or_A; TIGR01131 1105097000062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1105097000063 potential frameshift: common BLAST hit: gi|67458424|ref|YP_246048.1| protein-disulfide isomerase 1105097000064 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1105097000065 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105097000066 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 1105097000067 S-adenosylmethionine binding site [chemical binding]; other site 1105097000068 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105097000069 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1105097000070 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 1105097000071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097000072 Walker A/P-loop; other site 1105097000073 ATP binding site [chemical binding]; other site 1105097000074 Q-loop/lid; other site 1105097000075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097000076 ABC transporter signature motif; other site 1105097000077 Walker B; other site 1105097000078 D-loop; other site 1105097000079 H-loop/switch region; other site 1105097000080 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105097000081 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 1105097000082 Cu(I) binding site [ion binding]; other site 1105097000083 Putative transcriptional regulator [Transcription]; Region: COG1678 1105097000084 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1105097000085 Colicin V production protein; Region: Colicin_V; pfam02674 1105097000086 Protein of unknown function (DUF2748); Region: DUF2748; pfam10871 1105097000087 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 1105097000088 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105097000089 NAD(P) binding site [chemical binding]; other site 1105097000090 homotetramer interface [polypeptide binding]; other site 1105097000091 homodimer interface [polypeptide binding]; other site 1105097000092 active site 1105097000093 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1105097000094 Clp amino terminal domain; Region: Clp_N; pfam02861 1105097000095 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 1105097000096 Walker A motif; other site 1105097000097 ATP binding site [chemical binding]; other site 1105097000098 Walker B motif; other site 1105097000099 arginine finger; other site 1105097000100 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 1105097000101 Walker A motif; other site 1105097000102 ATP binding site [chemical binding]; other site 1105097000103 Walker B motif; other site 1105097000104 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1105097000105 UGMP family protein; Validated; Region: PRK09604 1105097000106 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1105097000107 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105097000108 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 1105097000109 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1105097000110 Di-iron ligands [ion binding]; other site 1105097000111 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 1105097000112 Protein of unknown function (DUF713); Region: DUF713; pfam05218 1105097000113 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1105097000114 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1105097000115 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1105097000116 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1105097000117 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1105097000118 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1105097000119 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 1105097000120 Ligand Binding Site [chemical binding]; other site 1105097000121 FtsH Extracellular; Region: FtsH_ext; pfam06480 1105097000122 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1105097000123 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 1105097000124 Walker A motif; other site 1105097000125 ATP binding site [chemical binding]; other site 1105097000126 Walker B motif; other site 1105097000127 arginine finger; other site 1105097000128 Peptidase family M41; Region: Peptidase_M41; pfam01434 1105097000129 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1105097000130 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1105097000131 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1105097000132 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1105097000133 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1105097000134 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1105097000135 membrane protein insertase; Provisional; Region: PRK01318 1105097000136 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1105097000137 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1105097000138 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105097000139 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1105097000140 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 1105097000141 putative substrate translocation pore; other site 1105097000142 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 1105097000143 active site 1105097000144 multimer interface [polypeptide binding]; other site 1105097000145 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1105097000146 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1105097000147 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1105097000148 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1105097000149 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 1105097000150 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1105097000151 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 1105097000152 P-loop; other site 1105097000153 Magnesium ion binding site [ion binding]; other site 1105097000154 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1105097000155 ParB-like nuclease domain; Region: ParBc; pfam02195 1105097000156 KorB domain; Region: KorB; pfam08535 1105097000157 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1105097000158 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105097000159 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105097000160 ABC transporter; Region: ABC_tran_2; pfam12848 1105097000161 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1105097000162 Protein of unknown function (DUF2672); Region: DUF2672; pfam10878 1105097000163 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 1105097000164 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1105097000165 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105097000166 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1105097000167 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1105097000168 Zn2+ binding site [ion binding]; other site 1105097000169 Mg2+ binding site [ion binding]; other site 1105097000170 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1105097000171 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1105097000172 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1105097000173 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1105097000174 active site 1105097000175 HIGH motif; other site 1105097000176 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105097000177 KMSK motif region; other site 1105097000178 tRNA binding surface [nucleotide binding]; other site 1105097000179 DALR anticodon binding domain; Region: DALR_1; smart00836 1105097000180 anticodon binding site; other site 1105097000181 Sporulation related domain; Region: SPOR; pfam05036 1105097000182 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1105097000183 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 1105097000184 CAP-like domain; other site 1105097000185 active site 1105097000186 primary dimer interface [polypeptide binding]; other site 1105097000187 Gram-negative porin; Region: Porin_4; pfam13609 1105097000188 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105097000189 trimer interface [polypeptide binding]; other site 1105097000190 active site 1105097000191 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 1105097000192 SecA binding site; other site 1105097000193 Preprotein binding site; other site 1105097000194 potential frameshift: common BLAST hit: gi|15603950|ref|NP_220465.1| transcriptional activator protein CZCR (czcR) 1105097000195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1105097000196 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1105097000197 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1105097000198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1105097000199 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1105097000200 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1105097000201 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1105097000202 EamA-like transporter family; Region: EamA; pfam00892 1105097000203 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1105097000204 EamA-like transporter family; Region: EamA; pfam00892 1105097000205 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 1105097000206 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097000207 putative substrate translocation pore; other site 1105097000208 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1105097000209 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1105097000210 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105097000211 active site 1105097000212 HIGH motif; other site 1105097000213 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1105097000214 KMSKS motif; other site 1105097000215 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105097000216 tRNA binding surface [nucleotide binding]; other site 1105097000217 anticodon binding site; other site 1105097000218 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 1105097000219 rRNA interaction site [nucleotide binding]; other site 1105097000220 S8 interaction site; other site 1105097000221 putative laminin-1 binding site; other site 1105097000222 elongation factor Ts; Provisional; Region: tsf; PRK09377 1105097000223 UBA/TS-N domain; Region: UBA; pfam00627 1105097000224 Elongation factor TS; Region: EF_TS; pfam00889 1105097000225 Elongation factor TS; Region: EF_TS; pfam00889 1105097000226 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1105097000227 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1105097000228 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1105097000229 putative acyl-acceptor binding pocket; other site 1105097000230 aspartate aminotransferase; Provisional; Region: PRK05764 1105097000231 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 1105097000232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105097000233 homodimer interface [polypeptide binding]; other site 1105097000234 catalytic residue [active] 1105097000235 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1105097000236 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1105097000237 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1105097000238 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 1105097000239 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1105097000240 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1105097000241 active site 1105097000242 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1105097000243 dimer interface [polypeptide binding]; other site 1105097000244 substrate binding site [chemical binding]; other site 1105097000245 catalytic residues [active] 1105097000246 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1105097000247 Permease; Region: Permease; pfam02405 1105097000248 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1105097000249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097000250 Walker A/P-loop; other site 1105097000251 ATP binding site [chemical binding]; other site 1105097000252 Q-loop/lid; other site 1105097000253 ABC transporter signature motif; other site 1105097000254 Walker B; other site 1105097000255 D-loop; other site 1105097000256 H-loop/switch region; other site 1105097000257 Ribosomal protein L28 [Translation, ribosomal structure and biogenesis]; Region: RpmB; COG0227 1105097000258 50S ribosomal protein L31; Provisional; Region: PRK01397 1105097000259 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1105097000260 G1 box; other site 1105097000261 GTP/Mg2+ binding site [chemical binding]; other site 1105097000262 Switch I region; other site 1105097000263 G2 box; other site 1105097000264 G3 box; other site 1105097000265 Switch II region; other site 1105097000266 G4 box; other site 1105097000267 G5 box; other site 1105097000268 type IV secretion system protein VirB3; Provisional; Region: PRK13899 1105097000269 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 1105097000270 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1105097000271 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105097000272 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097000273 Walker A/P-loop; other site 1105097000274 ATP binding site [chemical binding]; other site 1105097000275 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105097000276 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105097000277 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105097000278 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105097000279 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1105097000280 phosphate acetyltransferase; Provisional; Region: PRK11890 1105097000281 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 1105097000282 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 1105097000283 propionate/acetate kinase; Provisional; Region: PRK12379 1105097000284 tRNA-(guanine-N1)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmD; COG0336 1105097000285 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1105097000286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1105097000287 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1105097000288 Protein export membrane protein; Region: SecD_SecF; pfam02355 1105097000289 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1105097000290 SLBB domain; Region: SLBB; pfam10531 1105097000291 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1105097000292 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1105097000293 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 1105097000294 Catalytic site [active] 1105097000295 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 1105097000296 ribonuclease III; Reviewed; Region: rnc; PRK00102 1105097000297 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 1105097000298 dimerization interface [polypeptide binding]; other site 1105097000299 active site 1105097000300 metal binding site [ion binding]; metal-binding site 1105097000301 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 1105097000302 dsRNA binding site [nucleotide binding]; other site 1105097000303 GTPase [General function prediction only]; Region: Era; COG1159 1105097000304 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1105097000305 G1 box; other site 1105097000306 GTP/Mg2+ binding site [chemical binding]; other site 1105097000307 Switch I region; other site 1105097000308 G2 box; other site 1105097000309 Switch II region; other site 1105097000310 G3 box; other site 1105097000311 G4 box; other site 1105097000312 G5 box; other site 1105097000313 KH domain; Region: KH_2; pfam07650 1105097000314 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 1105097000315 active site 1105097000316 putative DNA-binding cleft [nucleotide binding]; other site 1105097000317 dimer interface [polypeptide binding]; other site 1105097000318 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 1105097000319 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 1105097000320 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1105097000321 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 1105097000322 Walker A motif; other site 1105097000323 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 1105097000324 HflK protein; Region: hflK; TIGR01933 1105097000325 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105097000326 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 1105097000327 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1105097000328 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105097000329 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 1105097000330 protein binding site [polypeptide binding]; other site 1105097000331 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 1105097000332 protein binding site [polypeptide binding]; other site 1105097000333 hypothetical protein; Validated; Region: PRK01415 1105097000334 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1105097000335 active site residue [active] 1105097000336 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 1105097000337 Iron-sulfur protein interface; other site 1105097000338 proximal quinone binding site [chemical binding]; other site 1105097000339 SdhD (CybS) interface [polypeptide binding]; other site 1105097000340 proximal heme binding site [chemical binding]; other site 1105097000341 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 1105097000342 putative SdhC subunit interface [polypeptide binding]; other site 1105097000343 putative proximal heme binding site [chemical binding]; other site 1105097000344 putative Iron-sulfur protein interface [polypeptide binding]; other site 1105097000345 putative proximal quinone binding site; other site 1105097000346 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1105097000347 L-aspartate oxidase; Provisional; Region: PRK06175 1105097000348 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1105097000349 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1105097000350 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 1105097000351 dimer interface [polypeptide binding]; other site 1105097000352 conserved gate region; other site 1105097000353 putative PBP binding loops; other site 1105097000354 ABC-ATPase subunit interface; other site 1105097000355 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 1105097000356 S17 interaction site [polypeptide binding]; other site 1105097000357 S8 interaction site; other site 1105097000358 16S rRNA interaction site [nucleotide binding]; other site 1105097000359 streptomycin interaction site [chemical binding]; other site 1105097000360 23S rRNA interaction site [nucleotide binding]; other site 1105097000361 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1105097000362 30S ribosomal protein S7; Validated; Region: PRK05302 1105097000363 elongation factor G; Reviewed; Region: PRK00007 1105097000364 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1105097000365 G1 box; other site 1105097000366 putative GEF interaction site [polypeptide binding]; other site 1105097000367 GTP/Mg2+ binding site [chemical binding]; other site 1105097000368 Switch I region; other site 1105097000369 G2 box; other site 1105097000370 G3 box; other site 1105097000371 Switch II region; other site 1105097000372 G4 box; other site 1105097000373 G5 box; other site 1105097000374 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 1105097000375 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 1105097000376 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 1105097000377 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1105097000378 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1105097000379 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 1105097000380 putative homodimer interface [polypeptide binding]; other site 1105097000381 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1105097000382 heterodimer interface [polypeptide binding]; other site 1105097000383 homodimer interface [polypeptide binding]; other site 1105097000384 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1105097000385 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 1105097000386 23S rRNA interface [nucleotide binding]; other site 1105097000387 putative thiostrepton binding site; other site 1105097000388 L7/L12 interface [polypeptide binding]; other site 1105097000389 L25 interface [polypeptide binding]; other site 1105097000390 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 1105097000391 mRNA/rRNA interface [nucleotide binding]; other site 1105097000392 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 1105097000393 23S rRNA interface [nucleotide binding]; other site 1105097000394 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1105097000395 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 1105097000396 core dimer interface [polypeptide binding]; other site 1105097000397 peripheral dimer interface [polypeptide binding]; other site 1105097000398 L10 interface [polypeptide binding]; other site 1105097000399 L11 interface [polypeptide binding]; other site 1105097000400 putative EF-Tu interaction site [polypeptide binding]; other site 1105097000401 putative EF-G interaction site [polypeptide binding]; other site 1105097000402 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1105097000403 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 1105097000404 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1105097000405 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 1105097000406 RPB11 interaction site [polypeptide binding]; other site 1105097000407 RPB12 interaction site [polypeptide binding]; other site 1105097000408 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 1105097000409 RPB3 interaction site [polypeptide binding]; other site 1105097000410 RPB1 interaction site [polypeptide binding]; other site 1105097000411 RPB11 interaction site [polypeptide binding]; other site 1105097000412 RPB10 interaction site [polypeptide binding]; other site 1105097000413 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1105097000414 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1105097000415 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1105097000416 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1105097000417 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1105097000418 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1105097000419 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1105097000420 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1105097000421 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1105097000422 DNA binding site [nucleotide binding] 1105097000423 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1105097000424 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1105097000425 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 1105097000426 interface (dimer of trimers) [polypeptide binding]; other site 1105097000427 Substrate-binding/catalytic site; other site 1105097000428 Zn-binding sites [ion binding]; other site 1105097000429 ATPase MipZ; Region: MipZ; pfam09140 1105097000430 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 1105097000431 P-loop; other site 1105097000432 Magnesium ion binding site [ion binding]; other site 1105097000433 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1105097000434 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 1105097000435 dimer interface [polypeptide binding]; other site 1105097000436 anticodon binding site; other site 1105097000437 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 1105097000438 homodimer interface [polypeptide binding]; other site 1105097000439 motif 1; other site 1105097000440 active site 1105097000441 motif 2; other site 1105097000442 GAD domain; Region: GAD; pfam02938 1105097000443 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 1105097000444 active site 1105097000445 motif 3; other site 1105097000446 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1105097000447 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1105097000448 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1105097000449 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1105097000450 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1105097000451 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1105097000452 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1105097000453 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 1105097000454 substrate binding pocket [chemical binding]; other site 1105097000455 membrane-bound complex binding site; other site 1105097000456 hinge residues; other site 1105097000457 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1105097000458 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1105097000459 GatB domain; Region: GatB_Yqey; smart00845 1105097000460 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1105097000461 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1105097000462 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 1105097000463 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1105097000464 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 1105097000465 hinge region; other site 1105097000466 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 1105097000467 putative nucleotide binding site [chemical binding]; other site 1105097000468 uridine monophosphate binding site [chemical binding]; other site 1105097000469 homohexameric interface [polypeptide binding]; other site 1105097000470 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK06580 1105097000471 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1105097000472 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 1105097000473 putative substrate translocation pore; other site 1105097000474 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 1105097000475 Protein of unknown function (DUF2674); Region: DUF2674; pfam10879 1105097000476 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1105097000477 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105097000478 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105097000479 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105097000480 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105097000481 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1105097000482 Surface antigen; Region: Bac_surface_Ag; pfam01103 1105097000483 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1105097000484 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 1105097000485 active site 1105097000486 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 1105097000487 protein binding site [polypeptide binding]; other site 1105097000488 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 1105097000489 putative substrate binding region [chemical binding]; other site 1105097000490 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1105097000491 putative RNA binding site [nucleotide binding]; other site 1105097000492 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1105097000493 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 1105097000494 S-adenosylmethionine binding site [chemical binding]; other site 1105097000495 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1105097000496 nucleophilic elbow; other site 1105097000497 catalytic triad; other site 1105097000498 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1105097000499 putative coenzyme Q binding site [chemical binding]; other site 1105097000500 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1105097000501 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1105097000502 RNA methyltransferase, RsmE family; Region: TIGR00046 1105097000503 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1105097000504 Uncharacterized conserved protein [Function unknown]; Region: COG2155 1105097000505 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1105097000506 Protein export membrane protein; Region: SecD_SecF; cl14618 1105097000507 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 1105097000508 IHF dimer interface [polypeptide binding]; other site 1105097000509 IHF - DNA interface [nucleotide binding]; other site 1105097000510 DNA polymerase III subunit delta'; Validated; Region: PRK06581 1105097000511 signal recognition particle protein; Provisional; Region: PRK10867 1105097000512 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1105097000513 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 1105097000514 P loop; other site 1105097000515 GTP binding site [chemical binding]; other site 1105097000516 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1105097000517 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1105097000518 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105097000519 coproporphyrinogen III oxidase; Provisional; Region: PRK06582 1105097000520 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 1105097000521 FeS/SAM binding site; other site 1105097000522 HemN C-terminal domain; Region: HemN_C; pfam06969 1105097000523 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1105097000524 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1105097000525 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105097000526 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1105097000527 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1105097000528 active site 1105097000529 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1105097000530 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 1105097000531 E3 interaction surface; other site 1105097000532 lipoyl attachment site [posttranslational modification]; other site 1105097000533 e3 binding domain; Region: E3_binding; pfam02817 1105097000534 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105097000535 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1105097000536 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 1105097000537 TPP-binding site [chemical binding]; other site 1105097000538 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1105097000539 potential frameshift: common BLAST hit: gi|379018735|ref|YP_005294969.1| thermostable carboxypeptidase 1105097000540 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1105097000541 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105097000542 Walker A/P-loop; other site 1105097000543 ATP binding site [chemical binding]; other site 1105097000544 Q-loop/lid; other site 1105097000545 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1105097000546 ABC transporter signature motif; other site 1105097000547 Walker B; other site 1105097000548 D-loop; other site 1105097000549 H-loop/switch region; other site 1105097000550 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1105097000551 chaperone protein DnaJ; Provisional; Region: PRK14300 1105097000552 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 1105097000553 HSP70 interaction site [polypeptide binding]; other site 1105097000554 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1105097000555 substrate binding site [polypeptide binding]; other site 1105097000556 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1105097000557 Zn binding sites [ion binding]; other site 1105097000558 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1105097000559 dimer interface [polypeptide binding]; other site 1105097000560 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1105097000561 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1105097000562 nucleotide binding site [chemical binding]; other site 1105097000563 NEF interaction site [polypeptide binding]; other site 1105097000564 SBD interface [polypeptide binding]; other site 1105097000565 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105097000566 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1105097000567 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1105097000568 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1105097000569 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1105097000570 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1105097000571 diiron binding motif [ion binding]; other site 1105097000572 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 1105097000573 Subunit III/VIIa interface [polypeptide binding]; other site 1105097000574 Phospholipid binding site [chemical binding]; other site 1105097000575 Subunit I/III interface [polypeptide binding]; other site 1105097000576 Subunit III/VIb interface [polypeptide binding]; other site 1105097000577 Subunit III/VIa interface; other site 1105097000578 Subunit III/Vb interface [polypeptide binding]; other site 1105097000579 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 1105097000580 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1105097000581 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: dapD; TIGR00965 1105097000582 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 1105097000583 trimer interface [polypeptide binding]; other site 1105097000584 active site 1105097000585 substrate binding site [chemical binding]; other site 1105097000586 CoA binding site [chemical binding]; other site 1105097000587 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 1105097000588 Transglycosylase; Region: Transgly; pfam00912 1105097000589 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105097000590 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1105097000591 Transglycosylase; Region: Transgly; cl17702 1105097000592 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 1105097000593 Ligand Binding Site [chemical binding]; other site 1105097000594 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1105097000595 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1105097000596 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1105097000597 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 1105097000598 catalytic loop [active] 1105097000599 iron binding site [ion binding]; other site 1105097000600 chaperone protein HscA; Provisional; Region: hscA; PRK01433 1105097000601 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1105097000602 nucleotide binding site [chemical binding]; other site 1105097000603 co-chaperone HscB; Provisional; Region: hscB; PRK01356 1105097000604 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 1105097000605 HSP70 interaction site [polypeptide binding]; other site 1105097000606 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1105097000607 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105097000608 active site 1105097000609 excinuclease ABC subunit B; Provisional; Region: PRK05298 1105097000610 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 1105097000611 ATP binding site [chemical binding]; other site 1105097000612 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 1105097000613 nucleotide binding region [chemical binding]; other site 1105097000614 ATP-binding site [chemical binding]; other site 1105097000615 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1105097000616 UvrB/uvrC motif; Region: UVR; pfam02151 1105097000617 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 1105097000618 GSH binding site [chemical binding]; other site 1105097000619 catalytic residues [active] 1105097000620 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105097000621 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1105097000622 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1105097000623 Walker A/P-loop; other site 1105097000624 ATP binding site [chemical binding]; other site 1105097000625 Q-loop/lid; other site 1105097000626 ABC transporter signature motif; other site 1105097000627 Walker B; other site 1105097000628 D-loop; other site 1105097000629 H-loop/switch region; other site 1105097000630 DNA gyrase subunit A; Validated; Region: PRK05560 1105097000631 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 1105097000632 CAP-like domain; other site 1105097000633 active site 1105097000634 primary dimer interface [polypeptide binding]; other site 1105097000635 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105097000636 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105097000637 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105097000638 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1105097000639 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1105097000640 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 1105097000641 active site 1105097000642 catalytic residues [active] 1105097000643 metal binding site [ion binding]; metal-binding site 1105097000644 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1105097000645 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1105097000646 putative active site [active] 1105097000647 substrate binding site [chemical binding]; other site 1105097000648 putative cosubstrate binding site; other site 1105097000649 catalytic site [active] 1105097000650 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1105097000651 substrate binding site [chemical binding]; other site 1105097000652 Predicted ATPase [General function prediction only]; Region: COG1485 1105097000653 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1105097000654 Walker A motif; other site 1105097000655 ATP binding site [chemical binding]; other site 1105097000656 Walker B motif; other site 1105097000657 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: PRK01424 1105097000658 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1105097000659 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105097000660 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105097000661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097000662 Walker A/P-loop; other site 1105097000663 ATP binding site [chemical binding]; other site 1105097000664 Q-loop/lid; other site 1105097000665 ABC transporter signature motif; other site 1105097000666 Walker B; other site 1105097000667 D-loop; other site 1105097000668 H-loop/switch region; other site 1105097000669 Protein of unknown function (DUF2671); Region: DUF2671; pfam10877 1105097000670 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1105097000671 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1105097000672 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1105097000673 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105097000674 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1105097000675 putative metal binding site; other site 1105097000676 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1105097000677 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1105097000678 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1105097000679 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1105097000680 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1105097000681 ATP binding site [chemical binding]; other site 1105097000682 active site 1105097000683 substrate binding site [chemical binding]; other site 1105097000684 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1105097000685 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 1105097000686 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105097000687 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 1105097000688 active site 1105097000689 dimer interface [polypeptide binding]; other site 1105097000690 motif 1; other site 1105097000691 motif 2; other site 1105097000692 motif 3; other site 1105097000693 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 1105097000694 anticodon binding site; other site 1105097000695 Protein of unknown function (DUF2660); Region: DUF2660; pfam10859 1105097000696 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1105097000697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1105097000698 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1105097000699 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 1105097000700 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1105097000701 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 1105097000702 ATP binding site [chemical binding]; other site 1105097000703 Mg2+ binding site [ion binding]; other site 1105097000704 G-X-G motif; other site 1105097000705 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 1105097000706 anchoring element; other site 1105097000707 dimer interface [polypeptide binding]; other site 1105097000708 ATP binding site [chemical binding]; other site 1105097000709 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 1105097000710 active site 1105097000711 metal binding site [ion binding]; metal-binding site 1105097000712 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105097000713 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1105097000714 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1105097000715 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 1105097000716 protein binding site [polypeptide binding]; other site 1105097000717 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1105097000718 Catalytic dyad [active] 1105097000719 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 1105097000720 dimer interface [polypeptide binding]; other site 1105097000721 phosphorylation site [posttranslational modification] 1105097000722 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 1105097000723 ATP binding site [chemical binding]; other site 1105097000724 Mg2+ binding site [ion binding]; other site 1105097000725 G-X-G motif; other site 1105097000726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1105097000727 Protein of unknown function (DUF2659); Region: DUF2659; pfam10858 1105097000728 FOG: WD40-like repeat [Function unknown]; Region: COG1520 1105097000729 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1105097000730 Trp docking motif [polypeptide binding]; other site 1105097000731 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 1105097000732 23S rRNA interface [nucleotide binding]; other site 1105097000733 L3 interface [polypeptide binding]; other site 1105097000734 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1105097000735 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 1105097000736 putative active site [active] 1105097000737 Ap4A binding site [chemical binding]; other site 1105097000738 nudix motif; other site 1105097000739 putative metal binding site [ion binding]; other site 1105097000740 response regulator PleD; Reviewed; Region: pleD; PRK09581 1105097000741 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 1105097000742 active site 1105097000743 phosphorylation site [posttranslational modification] 1105097000744 intermolecular recognition site; other site 1105097000745 dimerization interface [polypeptide binding]; other site 1105097000746 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 1105097000747 active site 1105097000748 phosphorylation site [posttranslational modification] 1105097000749 intermolecular recognition site; other site 1105097000750 dimerization interface [polypeptide binding]; other site 1105097000751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1105097000752 metal binding site [ion binding]; metal-binding site 1105097000753 active site 1105097000754 I-site; other site 1105097000755 elongation factor P; Validated; Region: PRK00529 1105097000756 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1105097000757 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 1105097000758 RNA binding site [nucleotide binding]; other site 1105097000759 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 1105097000760 RNA binding site [nucleotide binding]; other site 1105097000761 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105097000762 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 1105097000763 active site 1105097000764 Domain of unknown function (DUF2610); Region: DUF2610; pfam11020 1105097000765 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1105097000766 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1105097000767 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1105097000768 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1105097000769 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105097000770 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105097000771 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105097000772 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 1105097000773 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1105097000774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105097000775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105097000776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105097000777 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1105097000778 FAD binding domain; Region: FAD_binding_4; pfam01565 1105097000779 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1105097000780 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1105097000781 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1105097000782 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1105097000783 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1105097000784 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1105097000785 Cell division protein FtsQ; Region: FtsQ; pfam03799 1105097000786 cell division protein FtsA; Region: ftsA; TIGR01174 1105097000787 Cell division protein FtsA; Region: FtsA; smart00842 1105097000788 Cell division protein FtsA; Region: FtsA; pfam14450 1105097000789 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1105097000790 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1105097000791 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; COG0774 1105097000792 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1105097000793 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 1105097000794 RNA binding site [nucleotide binding]; other site 1105097000795 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 1105097000796 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1105097000797 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1105097000798 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1105097000799 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105097000800 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 1105097000801 RNA binding surface [nucleotide binding]; other site 1105097000802 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105097000803 active site 1105097000804 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1105097000805 Beta-lactamase; Region: Beta-lactamase; pfam00144 1105097000806 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 1105097000807 putative catalytic site [active] 1105097000808 putative phosphate binding site [ion binding]; other site 1105097000809 active site 1105097000810 metal binding site A [ion binding]; metal-binding site 1105097000811 DNA binding site [nucleotide binding] 1105097000812 putative AP binding site [nucleotide binding]; other site 1105097000813 putative metal binding site B [ion binding]; other site 1105097000814 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1105097000815 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 1105097000816 tetramer interface [polypeptide binding]; other site 1105097000817 TPP-binding site [chemical binding]; other site 1105097000818 heterodimer interface [polypeptide binding]; other site 1105097000819 phosphorylation loop region [posttranslational modification] 1105097000820 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 1105097000821 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 1105097000822 alpha subunit interface [polypeptide binding]; other site 1105097000823 TPP binding site [chemical binding]; other site 1105097000824 heterodimer interface [polypeptide binding]; other site 1105097000825 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1105097000826 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1105097000827 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1105097000828 G1 box; other site 1105097000829 putative GEF interaction site [polypeptide binding]; other site 1105097000830 GTP/Mg2+ binding site [chemical binding]; other site 1105097000831 Switch I region; other site 1105097000832 G2 box; other site 1105097000833 G3 box; other site 1105097000834 Switch II region; other site 1105097000835 G4 box; other site 1105097000836 G5 box; other site 1105097000837 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 1105097000838 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 1105097000839 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1105097000840 potential frameshift: common BLAST hit: gi|15604135|ref|NP_220650.1| isocitrate dehydrogenase 1105097000841 monovalent cation/proton antiporter, MnhG/PhaG subunit; Region: CPA3_mnhG_phaG; TIGR01300 1105097000842 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 1105097000843 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 1105097000844 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1105097000845 Protein of unknown function (DUF2670); Region: DUF2670; pfam10875 1105097000846 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1105097000847 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1105097000848 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 1105097000849 [2Fe-2S] cluster binding site [ion binding]; other site 1105097000850 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 1105097000851 cytochrome b; Provisional; Region: CYTB; MTH00191 1105097000852 Qi binding site; other site 1105097000853 intrachain domain interface; other site 1105097000854 interchain domain interface [polypeptide binding]; other site 1105097000855 heme bH binding site [chemical binding]; other site 1105097000856 heme bL binding site [chemical binding]; other site 1105097000857 Qo binding site; other site 1105097000858 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 1105097000859 interchain domain interface [polypeptide binding]; other site 1105097000860 intrachain domain interface; other site 1105097000861 Qi binding site; other site 1105097000862 Qo binding site; other site 1105097000863 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1105097000864 Cytochrome c; Region: Cytochrom_C; cl11414 1105097000865 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1105097000866 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 1105097000867 putative dimer interface [polypeptide binding]; other site 1105097000868 PCRF domain; Region: PCRF; pfam03462 1105097000869 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1105097000870 RF-1 domain; Region: RF-1; pfam00472 1105097000871 GTP-binding protein LepA; Provisional; Region: PRK05433 1105097000872 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1105097000873 G1 box; other site 1105097000874 putative GEF interaction site [polypeptide binding]; other site 1105097000875 GTP/Mg2+ binding site [chemical binding]; other site 1105097000876 Switch I region; other site 1105097000877 G2 box; other site 1105097000878 G3 box; other site 1105097000879 Switch II region; other site 1105097000880 G4 box; other site 1105097000881 G5 box; other site 1105097000882 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 1105097000883 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 1105097000884 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1105097000885 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1105097000886 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1105097000887 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105097000888 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06588 1105097000889 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097000890 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06589 1105097000891 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097000892 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK06591 1105097000893 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097000894 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1105097000895 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1105097000896 VirB7 interaction site; other site 1105097000897 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105097000898 Protein of unknown function (DUF2706); Region: DUF2706; pfam10913 1105097000899 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1105097000900 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1105097000901 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1105097000902 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 1105097000903 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 1105097000904 Walker A motif; other site 1105097000905 hexamer interface [polypeptide binding]; other site 1105097000906 ATP binding site [chemical binding]; other site 1105097000907 Walker B motif; other site 1105097000908 type IV secretion system component VirD4; Provisional; Region: PRK13897 1105097000909 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 1105097000910 Walker A motif; other site 1105097000911 ATP binding site [chemical binding]; other site 1105097000912 Walker B motif; other site 1105097000913 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1105097000914 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1105097000915 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105097000916 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105097000917 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1105097000918 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 1105097000919 active site 1105097000920 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1105097000921 MutS domain I; Region: MutS_I; pfam01624 1105097000922 MutS domain II; Region: MutS_II; pfam05188 1105097000923 MutS domain III; Region: MutS_III; pfam05192 1105097000924 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1105097000925 Walker A/P-loop; other site 1105097000926 ATP binding site [chemical binding]; other site 1105097000927 Q-loop/lid; other site 1105097000928 ABC transporter signature motif; other site 1105097000929 Walker B; other site 1105097000930 D-loop; other site 1105097000931 H-loop/switch region; other site 1105097000932 sugar-phosphate isomerase, RpiB/LacA/LacB family; Region: rpiB_lacA_lacB; TIGR00689 1105097000933 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105097000934 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1105097000935 translocation protein TolB; Provisional; Region: tolB; PRK05137 1105097000936 TolB amino-terminal domain; Region: TolB_N; pfam04052 1105097000937 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1105097000938 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1105097000939 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105097000940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105097000941 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 1105097000942 DNA binding residues [nucleotide binding] 1105097000943 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1105097000944 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1105097000945 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 1105097000946 Ligand Binding Site [chemical binding]; other site 1105097000947 amino acid transporter; Region: 2A0306; TIGR00909 1105097000948 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1105097000949 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 1105097000950 dimer interface [polypeptide binding]; other site 1105097000951 motif 1; other site 1105097000952 active site 1105097000953 motif 2; other site 1105097000954 motif 3; other site 1105097000955 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 1105097000956 anticodon binding site; other site 1105097000957 TolQ protein; Region: tolQ; TIGR02796 1105097000958 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1105097000959 TolR protein; Region: tolR; TIGR02801 1105097000960 Gram-negative bacterial tonB protein; Region: TonB; cl10048 1105097000961 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105097000962 HD domain; Region: HD_4; pfam13328 1105097000963 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 1105097000964 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097000965 putative substrate translocation pore; other site 1105097000966 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1105097000967 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 1105097000968 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105097000969 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 1105097000970 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1105097000971 Walker A/P-loop; other site 1105097000972 ATP binding site [chemical binding]; other site 1105097000973 Q-loop/lid; other site 1105097000974 ABC transporter signature motif; other site 1105097000975 Walker B; other site 1105097000976 D-loop; other site 1105097000977 H-loop/switch region; other site 1105097000978 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1105097000979 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1105097000980 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 1105097000981 nucleotide binding site/active site [active] 1105097000982 HIT family signature motif; other site 1105097000983 catalytic residue [active] 1105097000984 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1105097000985 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 1105097000986 active site 1105097000987 HslU subunit interaction site [polypeptide binding]; other site 1105097000988 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1105097000989 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 1105097000990 Walker A motif; other site 1105097000991 ATP binding site [chemical binding]; other site 1105097000992 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1105097000993 Walker B motif; other site 1105097000994 arginine finger; other site 1105097000995 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105097000996 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1105097000997 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 1105097000998 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1105097000999 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1105097001000 dimerization interface [polypeptide binding]; other site 1105097001001 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 1105097001002 putative iron binding site [ion binding]; other site 1105097001003 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1105097001004 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1105097001005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105097001006 HIGH motif; other site 1105097001007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105097001008 active site 1105097001009 KMSKS motif; other site 1105097001010 DNA topoisomerase I; Validated; Region: PRK06599 1105097001011 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 1105097001012 active site 1105097001013 interdomain interaction site; other site 1105097001014 putative metal-binding site [ion binding]; other site 1105097001015 nucleotide binding site [chemical binding]; other site 1105097001016 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 1105097001017 domain I; other site 1105097001018 DNA binding groove [nucleotide binding] 1105097001019 phosphate binding site [ion binding]; other site 1105097001020 domain II; other site 1105097001021 domain III; other site 1105097001022 nucleotide binding site [chemical binding]; other site 1105097001023 catalytic site [active] 1105097001024 domain IV; other site 1105097001025 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1105097001026 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1105097001027 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 1105097001028 dimer interface [polypeptide binding]; other site 1105097001029 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1105097001030 catalytic triad [active] 1105097001031 peroxidatic and resolving cysteines [active] 1105097001032 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1105097001033 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 1105097001034 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1105097001035 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1105097001036 Sulfatase; Region: Sulfatase; pfam00884 1105097001037 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1105097001038 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1105097001039 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1105097001040 NADP binding site [chemical binding]; other site 1105097001041 active site 1105097001042 putative substrate binding site [chemical binding]; other site 1105097001043 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1105097001044 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1105097001045 NAD(P) binding site [chemical binding]; other site 1105097001046 homodimer interface [polypeptide binding]; other site 1105097001047 substrate binding site [chemical binding]; other site 1105097001048 active site 1105097001049 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1105097001050 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1105097001051 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 1105097001052 active site 1105097001053 homodimer interface [polypeptide binding]; other site 1105097001054 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 1105097001055 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105097001056 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 1105097001057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105097001058 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 1105097001059 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1105097001060 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1105097001061 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105097001062 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 1105097001063 active site 1105097001064 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105097001065 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 1105097001066 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1105097001067 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1105097001068 HlyD family secretion protein; Region: HlyD_3; pfam13437 1105097001069 Protein of unknown function (DUF2608); Region: DUF2608; pfam11019 1105097001070 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105097001071 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1105097001072 catalytic site [active] 1105097001073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105097001074 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 1105097001075 putative ADP-binding pocket [chemical binding]; other site 1105097001076 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1105097001077 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1105097001078 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 1105097001079 RNA binding surface [nucleotide binding]; other site 1105097001080 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1105097001081 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105097001082 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1105097001083 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105097001084 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1105097001085 RimM N-terminal domain; Region: RimM; pfam01782 1105097001086 PRC-barrel domain; Region: PRC; pfam05239 1105097001087 exodeoxyribonuclease VII, small subunit; Region: xseB; TIGR01280 1105097001088 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1105097001089 active site 1105097001090 DNA binding site [nucleotide binding] 1105097001091 hypothetical protein; Provisional; Region: PRK14388 1105097001092 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1105097001093 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 1105097001094 putative dimer interface [polypeptide binding]; other site 1105097001095 [2Fe-2S] cluster binding site [ion binding]; other site 1105097001096 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1105097001097 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1105097001098 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1105097001099 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1105097001100 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1105097001101 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1105097001102 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1105097001103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1105097001104 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1105097001105 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 1105097001106 active site 1105097001107 DNA binding site [nucleotide binding] 1105097001108 Int/Topo IB signature motif; other site 1105097001109 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06603 1105097001110 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1105097001111 NAD binding site [chemical binding]; other site 1105097001112 homotetramer interface [polypeptide binding]; other site 1105097001113 homodimer interface [polypeptide binding]; other site 1105097001114 substrate binding site [chemical binding]; other site 1105097001115 active site 1105097001116 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1105097001117 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1105097001118 putative active site [active] 1105097001119 catalytic triad [active] 1105097001120 putative dimer interface [polypeptide binding]; other site 1105097001121 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1105097001122 zinc binding site [ion binding]; other site 1105097001123 putative ligand binding site [chemical binding]; other site 1105097001124 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 1105097001125 TM-ABC transporter signature motif; other site 1105097001126 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1105097001127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097001128 Walker A/P-loop; other site 1105097001129 ATP binding site [chemical binding]; other site 1105097001130 Q-loop/lid; other site 1105097001131 ABC transporter signature motif; other site 1105097001132 Walker B; other site 1105097001133 D-loop; other site 1105097001134 H-loop/switch region; other site 1105097001135 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1105097001136 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1105097001137 catalytic core domain of class I lysyl tRNA synthetase; Region: LysRS_core_class_I; cd00674 1105097001138 active site 1105097001139 HIGH motif; other site 1105097001140 KMSKS motif; other site 1105097001141 Predicted permeases [General function prediction only]; Region: COG0679 1105097001142 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1105097001143 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1105097001144 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1105097001145 putative NAD(P) binding site [chemical binding]; other site 1105097001146 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1105097001147 Sec7 domain; Domain named after the S. cerevisiae SEC7 gene product. The Sec7 domain is the central domain of the guanine-nucleotide-exchange factors (GEFs) of the ADP-ribosylation factor family of small GTPases (ARFs) . It carries the exchange factor...; Region: Sec7; cd00171 1105097001148 active site/putative ARF binding site [active] 1105097001149 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 1105097001150 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097001151 putative substrate translocation pore; other site 1105097001152 malate dehydrogenase; Reviewed; Region: PRK06223 1105097001153 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1105097001154 NAD(P) binding site [chemical binding]; other site 1105097001155 dimer interface [polypeptide binding]; other site 1105097001156 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105097001157 substrate binding site [chemical binding]; other site 1105097001158 potential frameshift: common BLAST hit: gi|15604244|ref|NP_220760.1| ADP,ATP carrier protein 1105097001159 CTP synthetase; Validated; Region: pyrG; PRK05380 1105097001160 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 1105097001161 Catalytic site [active] 1105097001162 active site 1105097001163 UTP binding site [chemical binding]; other site 1105097001164 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1105097001165 active site 1105097001166 putative oxyanion hole; other site 1105097001167 catalytic triad [active] 1105097001168 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1105097001169 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1105097001170 Ligand binding site; other site 1105097001171 oligomer interface; other site 1105097001172 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1105097001173 GTP cyclohydrolase I; Provisional; Region: PLN03044 1105097001174 active site 1105097001175 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1105097001176 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 1105097001177 dimer interface [polypeptide binding]; other site 1105097001178 motif 1; other site 1105097001179 active site 1105097001180 motif 2; other site 1105097001181 motif 3; other site 1105097001182 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 1105097001183 anticodon binding site; other site 1105097001184 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1105097001185 RuvA N terminal domain; Region: RuvA_N; pfam01330 1105097001186 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1105097001187 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 1105097001188 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 1105097001189 Walker A motif; other site 1105097001190 ATP binding site [chemical binding]; other site 1105097001191 Walker B motif; other site 1105097001192 arginine finger; other site 1105097001193 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1105097001194 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1105097001195 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105097001196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097001197 Walker A/P-loop; other site 1105097001198 ATP binding site [chemical binding]; other site 1105097001199 Q-loop/lid; other site 1105097001200 ABC transporter signature motif; other site 1105097001201 Walker B; other site 1105097001202 D-loop; other site 1105097001203 H-loop/switch region; other site 1105097001204 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1105097001205 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1105097001206 Rickettsial palindromic element RPE5 domain; Region: RPE5; TIGR03776 1105097001207 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1105097001208 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1105097001209 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1105097001210 BON domain; Region: BON; pfam04972 1105097001211 BON domain; Region: BON; pfam04972 1105097001212 intracellular septation protein A; Reviewed; Region: PRK00259 1105097001213 Iron permease FTR1 family; Region: FTR1; pfam03239 1105097001214 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1105097001215 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105097001216 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1105097001217 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 1105097001218 active site 1105097001219 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 1105097001220 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1105097001221 catalytic residues [active] 1105097001222 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1105097001223 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105097001224 tandem repeat interface [polypeptide binding]; other site 1105097001225 oligomer interface [polypeptide binding]; other site 1105097001226 active site residues [active] 1105097001227 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1105097001228 trimer interface [polypeptide binding]; other site 1105097001229 active site 1105097001230 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105097001231 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 1105097001232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105097001233 catalytic residue [active] 1105097001234 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1105097001235 dimer interface [polypeptide binding]; other site 1105097001236 catalytic triad [active] 1105097001237 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1105097001238 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105097001239 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1105097001240 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105097001241 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105097001242 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 1105097001243 Subunit I/III interface [polypeptide binding]; other site 1105097001244 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1105097001245 D-pathway; other site 1105097001246 Subunit I/VIIc interface [polypeptide binding]; other site 1105097001247 Subunit I/IV interface [polypeptide binding]; other site 1105097001248 Subunit I/II interface [polypeptide binding]; other site 1105097001249 Low-spin heme (heme a) binding site [chemical binding]; other site 1105097001250 Subunit I/VIIa interface [polypeptide binding]; other site 1105097001251 Subunit I/VIa interface [polypeptide binding]; other site 1105097001252 Dimer interface; other site 1105097001253 Putative water exit pathway; other site 1105097001254 Binuclear center (heme a3/CuB) [ion binding]; other site 1105097001255 K-pathway; other site 1105097001256 Subunit I/Vb interface [polypeptide binding]; other site 1105097001257 Putative proton exit pathway; other site 1105097001258 Subunit I/VIb interface; other site 1105097001259 Subunit I/VIc interface [polypeptide binding]; other site 1105097001260 Electron transfer pathway; other site 1105097001261 Subunit I/VIIIb interface [polypeptide binding]; other site 1105097001262 Subunit I/VIIb interface [polypeptide binding]; other site 1105097001263 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1105097001264 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00117 1105097001265 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1105097001266 putative peptidase; Provisional; Region: PRK11649 1105097001267 Peptidase family M23; Region: Peptidase_M23; pfam01551 1105097001268 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1105097001269 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 1105097001270 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01368 1105097001271 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105097001272 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105097001273 cell division protein FtsW; Region: ftsW; TIGR02614 1105097001274 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1105097001275 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 1105097001276 active site 1105097001277 homodimer interface [polypeptide binding]; other site 1105097001278 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 1105097001279 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1105097001280 diaminopimelate epimerase; Region: DapF; TIGR00652 1105097001281 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105097001282 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1105097001283 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1105097001284 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105097001285 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 1105097001286 FeS/SAM binding site; other site 1105097001287 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1105097001288 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1105097001289 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 1105097001290 dimer interface [polypeptide binding]; other site 1105097001291 motif 1; other site 1105097001292 active site 1105097001293 motif 2; other site 1105097001294 motif 3; other site 1105097001295 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1105097001296 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 1105097001297 putative tRNA-binding site [nucleotide binding]; other site 1105097001298 B3/4 domain; Region: B3_4; pfam03483 1105097001299 tRNA synthetase B5 domain; Region: B5; smart00874 1105097001300 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 1105097001301 dimer interface [polypeptide binding]; other site 1105097001302 motif 1; other site 1105097001303 motif 3; other site 1105097001304 motif 2; other site 1105097001305 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1105097001306 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 1105097001307 DNA polymerase III subunit beta; Validated; Region: PRK05643 1105097001308 putative DNA binding surface [nucleotide binding]; other site 1105097001309 dimer interface [polypeptide binding]; other site 1105097001310 beta-clamp/clamp loader binding surface; other site 1105097001311 beta-clamp/translesion DNA polymerase binding surface; other site 1105097001312 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 1105097001313 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1105097001314 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1105097001315 HIGH motif; other site 1105097001316 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105097001317 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105097001318 active site 1105097001319 KMSKS motif; other site 1105097001320 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1105097001321 tRNA binding surface [nucleotide binding]; other site 1105097001322 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105097001323 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105097001324 catalytic site [active] 1105097001325 putative active site [active] 1105097001326 putative substrate binding site [chemical binding]; other site 1105097001327 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1105097001328 Septum formation initiator; Region: DivIC; pfam04977 1105097001329 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1105097001330 Cytidylyltransferase family; Region: CTP_transf_1; cl17467 1105097001331 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1105097001332 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1105097001333 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 1105097001334 catalytic residue [active] 1105097001335 putative FPP diphosphate binding site; other site 1105097001336 putative FPP binding hydrophobic cleft; other site 1105097001337 dimer interface [polypeptide binding]; other site 1105097001338 putative IPP diphosphate binding site; other site 1105097001339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105097001340 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 1105097001341 dimer interface [polypeptide binding]; other site 1105097001342 phosphorylation site [posttranslational modification] 1105097001343 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 1105097001344 ATP binding site [chemical binding]; other site 1105097001345 Mg2+ binding site [ion binding]; other site 1105097001346 G-X-G motif; other site 1105097001347 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1105097001348 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 1105097001349 active site 1105097001350 phosphorylation site [posttranslational modification] 1105097001351 intermolecular recognition site; other site 1105097001352 dimerization interface [polypeptide binding]; other site 1105097001353 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 1105097001354 DNA binding site [nucleotide binding] 1105097001355 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1105097001356 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 1105097001357 homodimer interface [polypeptide binding]; other site 1105097001358 substrate-cofactor binding pocket; other site 1105097001359 catalytic residue [active] 1105097001360 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1105097001361 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1105097001362 dimer interface [polypeptide binding]; other site 1105097001363 active site 1105097001364 catalytic residue [active] 1105097001365 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 1105097001366 SmpB-tmRNA interface; other site 1105097001367 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 1105097001368 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1105097001369 catalytic residues [active] 1105097001370 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1105097001371 CoA binding domain; Region: CoA_binding; pfam02629 1105097001372 CoA-ligase; Region: Ligase_CoA; pfam00549 1105097001373 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1105097001374 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1105097001375 CoA-ligase; Region: Ligase_CoA; pfam00549 1105097001376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1105097001377 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1105097001378 Predicted membrane protein [Function unknown]; Region: COG1238 1105097001379 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1105097001380 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1105097001381 RecR protein; Region: RecR; pfam02132 1105097001382 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 1105097001383 putative active site [active] 1105097001384 putative metal-binding site [ion binding]; other site 1105097001385 tetramer interface [polypeptide binding]; other site 1105097001386 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1105097001387 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1105097001388 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1105097001389 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1105097001390 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1105097001391 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1105097001392 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1105097001393 Predicted permeases [General function prediction only]; Region: COG0679 1105097001394 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105097001395 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1105097001396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105097001397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105097001398 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1105097001399 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 1105097001400 active site 1105097001401 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1105097001402 Part of AAA domain; Region: AAA_19; pfam13245 1105097001403 Family description; Region: UvrD_C_2; pfam13538 1105097001404 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1105097001405 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 1105097001406 tetramer interface [polypeptide binding]; other site 1105097001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105097001408 catalytic residue [active] 1105097001409 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1105097001410 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1105097001411 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 1105097001412 Walker A motif; other site 1105097001413 ATP binding site [chemical binding]; other site 1105097001414 Walker B motif; other site 1105097001415 arginine finger; other site 1105097001416 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1105097001417 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1105097001418 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1105097001419 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 1105097001420 homotetramer interface [polypeptide binding]; other site 1105097001421 FMN binding site [chemical binding]; other site 1105097001422 homodimer contacts [polypeptide binding]; other site 1105097001423 putative active site [active] 1105097001424 putative substrate binding site [chemical binding]; other site 1105097001425 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1105097001426 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1105097001427 Substrate binding site; other site 1105097001428 Mg++ binding site; other site 1105097001429 hypothetical protein; Validated; Region: PRK00110 1105097001430 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1105097001431 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1105097001432 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 1105097001433 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1105097001434 Protein of unknown function (DUF2532); Region: DUF2532; pfam10811 1105097001435 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1105097001436 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1105097001437 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1105097001438 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105097001439 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105097001440 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105097001441 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1105097001442 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1105097001443 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1105097001444 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1105097001445 catalytic site [active] 1105097001446 putative active site [active] 1105097001447 putative substrate binding site [chemical binding]; other site 1105097001448 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1105097001449 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 1105097001450 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1105097001451 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1105097001452 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1105097001453 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105097001454 Na binding site [ion binding]; other site 1105097001455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1105097001456 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 1105097001457 dimer interface [polypeptide binding]; other site 1105097001458 phosphorylation site [posttranslational modification] 1105097001459 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 1105097001460 ATP binding site [chemical binding]; other site 1105097001461 Mg2+ binding site [ion binding]; other site 1105097001462 G-X-G motif; other site 1105097001463 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1105097001464 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 1105097001465 domain interfaces; other site 1105097001466 active site 1105097001467 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1105097001468 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1105097001469 active site 1105097001470 HIGH motif; other site 1105097001471 dimer interface [polypeptide binding]; other site 1105097001472 KMSKS motif; other site 1105097001473 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1105097001474 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105097001475 putative acyl-acceptor binding pocket; other site 1105097001476 Protein required for attachment to host cells [Cell motility and secretion]; Region: COG5622 1105097001477 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1105097001478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1105097001479 HemY protein N-terminus; Region: HemY_N; pfam07219 1105097001480 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 1105097001481 active site 1105097001482 AmpG-like permease; Region: 2A0125; TIGR00901 1105097001483 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1105097001484 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1105097001485 Ligand binding site; other site 1105097001486 metal-binding site 1105097001487 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105097001488 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1105097001489 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1105097001490 substrate binding pocket [chemical binding]; other site 1105097001491 chain length determination region; other site 1105097001492 substrate-Mg2+ binding site; other site 1105097001493 catalytic residues [active] 1105097001494 aspartate-rich region 1; other site 1105097001495 active site lid residues [active] 1105097001496 aspartate-rich region 2; other site 1105097001497 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1105097001498 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1105097001499 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 1105097001500 active site 1105097001501 arginine:agmatin antiporter; Provisional; Region: PRK10644 1105097001502 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1105097001503 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1105097001504 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1105097001505 trimerization site [polypeptide binding]; other site 1105097001506 active site 1105097001507 cysteine desulfurase; Provisional; Region: PRK14012 1105097001508 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105097001509 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105097001510 catalytic residue [active] 1105097001511 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1105097001512 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1105097001513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1105097001514 catalytic residue [active] 1105097001515 Predicted transcriptional regulator [Transcription]; Region: COG1959 1105097001516 Transcriptional regulator; Region: Rrf2; cl17282 1105097001517 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1105097001518 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 1105097001519 GSH binding site (G-site) [chemical binding]; other site 1105097001520 C-terminal domain interface [polypeptide binding]; other site 1105097001521 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1105097001522 N-terminal domain interface [polypeptide binding]; other site 1105097001523 dimer interface [polypeptide binding]; other site 1105097001524 substrate binding pocket (H-site) [chemical binding]; other site 1105097001525 pyruvate, phosphate dikinase; Region: pyru_phos_dikin; TIGR01828 1105097001526 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1105097001527 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1105097001528 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1105097001529 hypothetical protein; Provisional; Region: PRK06661 1105097001530 intersubunit interface [polypeptide binding]; other site 1105097001531 active site 1105097001532 Zn2+ binding site [ion binding]; other site 1105097001533 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1105097001534 uncharacterized protein, YfiH family; Region: TIGR00726 1105097001535 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1105097001536 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1105097001537 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1105097001538 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1105097001539 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 1105097001540 non-specific DNA binding site [nucleotide binding]; other site 1105097001541 salt bridge; other site 1105097001542 sequence-specific DNA binding site [nucleotide binding]; other site 1105097001543 120 KDa Rickettsia surface antigen; Region: 120_Rick_ant; pfam12574 1105097001544 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105097001545 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01528 1105097001546 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1105097001547 RNA binding site [nucleotide binding]; other site 1105097001548 active site 1105097001549 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 1105097001550 16S/18S rRNA binding site [nucleotide binding]; other site 1105097001551 S13e-L30e interaction site [polypeptide binding]; other site 1105097001552 25S rRNA binding site [nucleotide binding]; other site 1105097001553 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1105097001554 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1105097001555 oligomer interface [polypeptide binding]; other site 1105097001556 RNA binding site [nucleotide binding]; other site 1105097001557 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1105097001558 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1105097001559 RNase E interface [polypeptide binding]; other site 1105097001560 trimer interface [polypeptide binding]; other site 1105097001561 active site 1105097001562 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 1105097001563 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 1105097001564 RNA binding site [nucleotide binding]; other site 1105097001565 domain interface; other site 1105097001566 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1105097001567 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 1105097001568 putative active site [active] 1105097001569 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 1105097001570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1105097001571 OstA-like protein; Region: OstA; pfam03968 1105097001572 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1105097001573 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1105097001574 Walker A/P-loop; other site 1105097001575 ATP binding site [chemical binding]; other site 1105097001576 Q-loop/lid; other site 1105097001577 ABC transporter signature motif; other site 1105097001578 Walker B; other site 1105097001579 D-loop; other site 1105097001580 H-loop/switch region; other site 1105097001581 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1105097001582 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 1105097001583 active site 1105097001584 substrate binding site [chemical binding]; other site 1105097001585 metal binding site [ion binding]; metal-binding site 1105097001586 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1105097001587 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1105097001588 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1105097001589 dimer interface [polypeptide binding]; other site 1105097001590 putative radical transfer pathway; other site 1105097001591 diiron center [ion binding]; other site 1105097001592 tyrosyl radical; other site 1105097001593 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1105097001594 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1105097001595 active site 1105097001596 dimer interface [polypeptide binding]; other site 1105097001597 catalytic residues [active] 1105097001598 effector binding site; other site 1105097001599 R2 peptide binding site; other site 1105097001600 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1105097001601 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1105097001602 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105097001603 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14171 1105097001604 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1105097001605 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1105097001606 homodimer interface [polypeptide binding]; other site 1105097001607 NADP binding site [chemical binding]; other site 1105097001608 substrate binding site [chemical binding]; other site 1105097001609 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1105097001610 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1105097001611 trimer interface [polypeptide binding]; other site 1105097001612 putative metal binding site [ion binding]; other site 1105097001613 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 1105097001614 30S subunit binding site; other site 1105097001615 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1105097001616 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1105097001617 oligomer interface [polypeptide binding]; other site 1105097001618 active site residues [active] 1105097001619 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1105097001620 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 1105097001621 RNA binding site [nucleotide binding]; other site 1105097001622 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 1105097001623 RNA binding site [nucleotide binding]; other site 1105097001624 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 1105097001625 RNA binding site [nucleotide binding]; other site 1105097001626 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 1105097001627 RNA binding site [nucleotide binding]; other site 1105097001628 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 1105097001629 RNA binding site [nucleotide binding]; other site 1105097001630 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 1105097001631 RNA binding site [nucleotide binding]; other site 1105097001632 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 1105097001633 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 1105097001634 CMP-binding site; other site 1105097001635 The sites determining sugar specificity; other site 1105097001636 Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]; Region: HimA; COG0776 1105097001637 IHF - DNA interface [nucleotide binding]; other site 1105097001638 IHF dimer interface [polypeptide binding]; other site 1105097001639 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1105097001640 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1105097001641 tandem repeat interface [polypeptide binding]; other site 1105097001642 oligomer interface [polypeptide binding]; other site 1105097001643 active site residues [active] 1105097001644 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1105097001645 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1105097001646 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 1105097001647 RNA binding site [nucleotide binding]; other site 1105097001648 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 1105097001649 multimer interface [polypeptide binding]; other site 1105097001650 Walker A motif; other site 1105097001651 ATP binding site [chemical binding]; other site 1105097001652 Walker B motif; other site 1105097001653 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 1105097001654 S-adenosylmethionine binding site [chemical binding]; other site 1105097001655 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105097001656 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1105097001657 DHH family; Region: DHH; pfam01368 1105097001658 DHHA1 domain; Region: DHHA1; pfam02272 1105097001659 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1105097001660 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1105097001661 RF-1 domain; Region: RF-1; pfam00472 1105097001662 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 1105097001663 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1105097001664 E3 interaction surface; other site 1105097001665 lipoyl attachment site [posttranslational modification]; other site 1105097001666 e3 binding domain; Region: E3_binding; pfam02817 1105097001667 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1105097001668 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1105097001669 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1105097001670 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1105097001671 Predicted membrane protein [Function unknown]; Region: COG5346 1105097001672 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1105097001673 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1105097001674 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1105097001675 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1105097001676 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 1105097001677 active site 1105097001678 nucleophile elbow; other site 1105097001679 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1105097001680 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1105097001681 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1105097001682 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1105097001683 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 1105097001684 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097001685 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 1105097001686 dimer interface [polypeptide binding]; other site 1105097001687 allosteric magnesium binding site [ion binding]; other site 1105097001688 active site 1105097001689 aspartate-rich active site metal binding site; other site 1105097001690 Schiff base residues; other site 1105097001691 primosome assembly protein PriA; Validated; Region: PRK05580 1105097001692 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 1105097001693 ATP binding site [chemical binding]; other site 1105097001694 putative Mg++ binding site [ion binding]; other site 1105097001695 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1105097001696 polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases; Region: ubiX_pad; TIGR00421 1105097001697 Flavoprotein; Region: Flavoprotein; pfam02441 1105097001698 replicative DNA helicase; Provisional; Region: PRK09165 1105097001699 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1105097001700 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 1105097001701 Walker A motif; other site 1105097001702 ATP binding site [chemical binding]; other site 1105097001703 Walker B motif; other site 1105097001704 DNA binding loops [nucleotide binding] 1105097001705 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1105097001706 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 1105097001707 RNA binding surface [nucleotide binding]; other site 1105097001708 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1105097001709 probable active site [active] 1105097001710 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1105097001711 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 1105097001712 S-adenosylmethionine binding site [chemical binding]; other site 1105097001713 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105097001714 DNA repair protein RadA; Provisional; Region: PRK11823 1105097001715 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1105097001716 Walker A motif; other site 1105097001717 ATP binding site [chemical binding]; other site 1105097001718 Walker B motif; other site 1105097001719 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1105097001720 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1105097001721 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1105097001722 Recombination protein O N terminal; Region: RecO_N; pfam11967 1105097001723 Recombination protein O C terminal; Region: RecO_C; pfam02565 1105097001724 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1105097001725 Glycoprotease family; Region: Peptidase_M22; pfam00814 1105097001726 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1105097001727 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1105097001728 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1105097001729 G1 box; other site 1105097001730 putative GEF interaction site [polypeptide binding]; other site 1105097001731 GTP/Mg2+ binding site [chemical binding]; other site 1105097001732 Switch I region; other site 1105097001733 G2 box; other site 1105097001734 G3 box; other site 1105097001735 Switch II region; other site 1105097001736 G4 box; other site 1105097001737 G5 box; other site 1105097001738 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 1105097001739 Translation-initiation factor 2; Region: IF-2; pfam11987 1105097001740 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 1105097001741 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1105097001742 NusA N-terminal domain; Region: NusA_N; pfam08529 1105097001743 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 1105097001744 RNA binding site [nucleotide binding]; other site 1105097001745 homodimer interface [polypeptide binding]; other site 1105097001746 NusA-like KH domain; Region: KH_5; pfam13184 1105097001747 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 1105097001748 G-X-X-G motif; other site 1105097001749 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1105097001750 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1105097001751 Sm and related proteins; Region: Sm_like; cl00259 1105097001752 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1105097001753 putative oligomer interface [polypeptide binding]; other site 1105097001754 putative RNA binding site [nucleotide binding]; other site 1105097001755 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1105097001756 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 1105097001757 RNA binding surface [nucleotide binding]; other site 1105097001758 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1105097001759 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1105097001760 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1105097001761 active site 1105097001762 HIGH motif; other site 1105097001763 dimer interface [polypeptide binding]; other site 1105097001764 KMSKS motif; other site 1105097001765 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 1105097001766 RNA binding surface [nucleotide binding]; other site 1105097001767 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1105097001768 MG2 domain; Region: A2M_N; pfam01835 1105097001769 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1105097001770 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1105097001771 surface patch; other site 1105097001772 thioester region; other site 1105097001773 specificity defining residues; other site 1105097001774 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1105097001775 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1105097001776 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1105097001777 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1105097001778 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1105097001779 substrate binding site [chemical binding]; other site 1105097001780 oxyanion hole (OAH) forming residues; other site 1105097001781 trimer interface [polypeptide binding]; other site 1105097001782 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK06617 1105097001783 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1105097001784 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1105097001785 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1105097001786 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 1105097001787 active site 1105097001788 phosphorylation site [posttranslational modification] 1105097001789 intermolecular recognition site; other site 1105097001790 dimerization interface [polypeptide binding]; other site 1105097001791 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 1105097001792 Walker A motif; other site 1105097001793 ATP binding site [chemical binding]; other site 1105097001794 Walker B motif; other site 1105097001795 arginine finger; other site 1105097001796 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1105097001797 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1105097001798 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105097001799 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1105097001800 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105097001801 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1105097001802 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1105097001803 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105097001804 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105097001805 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1105097001806 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1105097001807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1105097001808 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1105097001809 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1105097001810 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 1105097001811 S-adenosylmethionine binding site [chemical binding]; other site 1105097001812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1105097001813 MraZ protein; Region: MraZ; pfam02381 1105097001814 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 1105097001815 Na binding site [ion binding]; other site 1105097001816 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1105097001817 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1105097001818 GIY-YIG motif/motif A; other site 1105097001819 active site 1105097001820 catalytic site [active] 1105097001821 putative DNA binding site [nucleotide binding]; other site 1105097001822 metal binding site [ion binding]; metal-binding site 1105097001823 UvrB/uvrC motif; Region: UVR; pfam02151 1105097001824 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1105097001825 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1105097001826 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1105097001827 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1105097001828 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1105097001829 SEC-C motif; Region: SEC-C; pfam02810 1105097001830 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 1105097001831 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1105097001832 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1105097001833 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1105097001834 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1105097001835 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 1105097001836 hinge; other site 1105097001837 active site 1105097001838 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1105097001839 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 1105097001840 Mg2+ binding site [ion binding]; other site 1105097001841 G-X-G motif; other site 1105097001842 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 1105097001843 anchoring element; other site 1105097001844 dimer interface [polypeptide binding]; other site 1105097001845 ATP binding site [chemical binding]; other site 1105097001846 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 1105097001847 active site 1105097001848 putative metal-binding site [ion binding]; other site 1105097001849 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1105097001850 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 1105097001851 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 1105097001852 active site 1105097001853 motif I; other site 1105097001854 motif II; other site 1105097001855 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 1105097001856 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1105097001857 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1105097001858 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 1105097001859 Divalent cation transporter; Region: MgtE; pfam01769 1105097001860 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1105097001861 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1105097001862 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1105097001863 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1105097001864 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 1105097001865 Cu(I) binding site [ion binding]; other site 1105097001866 Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]; Region: CcmE; COG2332 1105097001867 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 1105097001868 dimer interface [polypeptide binding]; other site 1105097001869 substrate binding site [chemical binding]; other site 1105097001870 metal binding sites [ion binding]; metal-binding site 1105097001871 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1105097001872 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1105097001873 TraX protein; Region: TraX; pfam05857 1105097001874 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1105097001875 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 1105097001876 ssDNA binding site; other site 1105097001877 generic binding surface II; other site 1105097001878 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 1105097001879 ATP binding site [chemical binding]; other site 1105097001880 putative Mg++ binding site [ion binding]; other site 1105097001881 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 1105097001882 nucleotide binding region [chemical binding]; other site 1105097001883 ATP-binding site [chemical binding]; other site 1105097001884 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1105097001885 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 1105097001886 Mg++ binding site [ion binding]; other site 1105097001887 putative catalytic motif [active] 1105097001888 putative substrate binding site [chemical binding]; other site 1105097001889 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105097001890 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1105097001891 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105097001892 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105097001893 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1105097001894 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1105097001895 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1105097001896 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1105097001897 potential frameshift: common BLAST hit: gi|15604448|ref|NP_220966.1| transcription-repair coupling factor 1105097001898 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1105097001899 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 1105097001900 active site residue [active] 1105097001901 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1105097001902 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1105097001903 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 1105097001904 Walker A motif; other site 1105097001905 ATP binding site [chemical binding]; other site 1105097001906 Walker B motif; other site 1105097001907 arginine finger; other site 1105097001908 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 1105097001909 DnaA box-binding interface [nucleotide binding]; other site 1105097001910 Patatin [General function prediction only]; Region: COG3621 1105097001911 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 1105097001912 active site 1105097001913 nucleophile elbow; other site 1105097001914 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1105097001915 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 1105097001916 putative substrate translocation pore; other site 1105097001917 GTP-binding protein YchF; Reviewed; Region: PRK09601 1105097001918 YchF GTPase; Region: YchF; cd01900 1105097001919 G1 box; other site 1105097001920 GTP/Mg2+ binding site [chemical binding]; other site 1105097001921 Switch I region; other site 1105097001922 G2 box; other site 1105097001923 Switch II region; other site 1105097001924 G3 box; other site 1105097001925 G4 box; other site 1105097001926 G5 box; other site 1105097001927 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 1105097001928 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 1105097001929 putative active site [active] 1105097001930 catalytic residue [active] 1105097001931 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1105097001932 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1105097001933 5S rRNA interface [nucleotide binding]; other site 1105097001934 CTC domain interface [polypeptide binding]; other site 1105097001935 L16 interface [polypeptide binding]; other site 1105097001936 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1105097001937 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1105097001938 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1105097001939 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1105097001940 23S rRNA binding site [nucleotide binding]; other site 1105097001941 L21 binding site [polypeptide binding]; other site 1105097001942 L13 binding site [polypeptide binding]; other site 1105097001943 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1105097001944 ribonuclease P; Reviewed; Region: rnpA; PRK01492 1105097001945 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1105097001946 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 1105097001947 dimerization interface [polypeptide binding]; other site 1105097001948 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 1105097001949 dimer interface [polypeptide binding]; other site 1105097001950 phosphorylation site [posttranslational modification] 1105097001951 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 1105097001952 ATP binding site [chemical binding]; other site 1105097001953 Mg2+ binding site [ion binding]; other site 1105097001954 G-X-G motif; other site 1105097001955 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1105097001956 Uncharacterized conserved protein [Function unknown]; Region: COG5590 1105097001957 COQ9; Region: COQ9; pfam08511 1105097001958 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1105097001959 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105097001960 HIGH motif; other site 1105097001961 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1105097001962 active site 1105097001963 KMSKS motif; other site 1105097001964 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1105097001965 tRNA binding surface [nucleotide binding]; other site 1105097001966 anticodon binding site; other site 1105097001967 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1105097001968 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1105097001969 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1105097001970 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1105097001971 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 1105097001972 carboxyltransferase (CT) interaction site; other site 1105097001973 biotinylation site [posttranslational modification]; other site 1105097001974 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1105097001975 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1105097001976 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1105097001977 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1105097001978 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 1105097001979 putative substrate translocation pore; other site 1105097001980 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1105097001981 putative acyl-acceptor binding pocket; other site 1105097001982 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1105097001983 acyl-activating enzyme (AAE) consensus motif; other site 1105097001984 putative AMP binding site [chemical binding]; other site 1105097001985 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 1105097001986 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1105097001987 dimer interface [polypeptide binding]; other site 1105097001988 putative PBP binding regions; other site 1105097001989 ABC-ATPase subunit interface; other site 1105097001990 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1105097001991 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 1105097001992 S-adenosylmethionine binding site [chemical binding]; other site 1105097001993 glutamyl-tRNA synthetase; Provisional; Region: gltX; PRK14895 1105097001994 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105097001995 HIGH motif; other site 1105097001996 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1105097001997 active site 1105097001998 KMSKS motif; other site 1105097001999 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105097002000 HD domain; Region: HD_4; pfam13328 1105097002001 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1105097002002 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1105097002003 synthetase active site [active] 1105097002004 NTP binding site [chemical binding]; other site 1105097002005 metal binding site [ion binding]; metal-binding site 1105097002006 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1105097002007 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 1105097002008 ring oligomerisation interface [polypeptide binding]; other site 1105097002009 ATP/Mg binding site [chemical binding]; other site 1105097002010 stacking interactions; other site 1105097002011 hinge regions; other site 1105097002012 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 1105097002013 oligomerisation interface [polypeptide binding]; other site 1105097002014 mobile loop; other site 1105097002015 roof hairpin; other site 1105097002016 ribonuclease PH; Reviewed; Region: rph; PRK00173 1105097002017 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1105097002018 hexamer interface [polypeptide binding]; other site 1105097002019 active site 1105097002020 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1105097002021 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 1105097002022 dimer interface [polypeptide binding]; other site 1105097002023 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1105097002024 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1105097002025 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1105097002026 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1105097002027 hypothetical protein; Validated; Region: PRK06620 1105097002028 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1105097002029 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1105097002030 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1105097002031 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1105097002032 alphaNTD - beta interaction site [polypeptide binding]; other site 1105097002033 alphaNTD homodimer interface [polypeptide binding]; other site 1105097002034 alphaNTD - beta' interaction site [polypeptide binding]; other site 1105097002035 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1105097002036 30S ribosomal protein S11; Validated; Region: PRK05309 1105097002037 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1105097002038 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1105097002039 adenylate kinase; Reviewed; Region: adk; PRK00279 1105097002040 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 1105097002041 AMP-binding site [chemical binding]; other site 1105097002042 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1105097002043 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1105097002044 SecY translocase; Region: SecY; pfam00344 1105097002045 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1105097002046 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 1105097002047 23S rRNA binding site [nucleotide binding]; other site 1105097002048 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1105097002049 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1105097002050 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1105097002051 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 1105097002052 5S rRNA interface [nucleotide binding]; other site 1105097002053 23S rRNA interface [nucleotide binding]; other site 1105097002054 L5 interface [polypeptide binding]; other site 1105097002055 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1105097002056 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105097002057 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1105097002058 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1105097002059 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1105097002060 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1105097002061 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1105097002062 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1105097002063 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1105097002064 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1105097002065 RNA binding site [nucleotide binding]; other site 1105097002066 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1105097002067 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1105097002068 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 1105097002069 L23 interface [polypeptide binding]; other site 1105097002070 trigger factor interaction site; other site 1105097002071 23S rRNA interface [nucleotide binding]; other site 1105097002072 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 1105097002073 23S rRNA interface [nucleotide binding]; other site 1105097002074 5S rRNA interface [nucleotide binding]; other site 1105097002075 putative antibiotic binding site [chemical binding]; other site 1105097002076 L25 interface [polypeptide binding]; other site 1105097002077 L27 interface [polypeptide binding]; other site 1105097002078 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 1105097002079 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 1105097002080 G-X-X-G motif; other site 1105097002081 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1105097002082 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 1105097002083 putative translocon binding site; other site 1105097002084 protein-rRNA interface [nucleotide binding]; other site 1105097002085 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1105097002086 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1105097002087 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1105097002088 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1105097002089 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1105097002090 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1105097002091 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1105097002092 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1105097002093 elongation factor Tu; Reviewed; Region: PRK00049 1105097002094 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1105097002095 G1 box; other site 1105097002096 GEF interaction site [polypeptide binding]; other site 1105097002097 GTP/Mg2+ binding site [chemical binding]; other site 1105097002098 Switch I region; other site 1105097002099 G2 box; other site 1105097002100 G3 box; other site 1105097002101 Switch II region; other site 1105097002102 G4 box; other site 1105097002103 G5 box; other site 1105097002104 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 1105097002105 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 1105097002106 Antibiotic Binding Site [chemical binding]; other site 1105097002107 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1105097002108 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1105097002109 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1105097002110 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1105097002111 Class II fumarases; Region: Fumarase_classII; cd01362 1105097002112 active site 1105097002113 tetramer interface [polypeptide binding]; other site 1105097002114 cell division protein FtsZ; Validated; Region: PRK09330 1105097002115 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 1105097002116 nucleotide binding site [chemical binding]; other site 1105097002117 SulA interaction site; other site 1105097002118 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; smart00932 1105097002119 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1105097002120 muropeptide transporter; Validated; Region: ampG; cl17669 1105097002121 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 1105097002122 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1105097002123 ATP binding site [chemical binding]; other site 1105097002124 Mg++ binding site [ion binding]; other site 1105097002125 motif III; other site 1105097002126 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 1105097002127 nucleotide binding region [chemical binding]; other site 1105097002128 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 1105097002129 DNA-binding site [nucleotide binding]; DNA binding site 1105097002130 RNA-binding motif; other site 1105097002131 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1105097002132 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 1105097002133 S-adenosylmethionine binding site [chemical binding]; other site 1105097002134 SurA N-terminal domain; Region: SurA_N_3; cl07813 1105097002135 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1105097002136 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1105097002137 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1105097002138 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 1105097002139 generic binding surface II; other site 1105097002140 generic binding surface I; other site 1105097002141 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 1105097002142 putative catalytic site [active] 1105097002143 putative phosphate binding site [ion binding]; other site 1105097002144 active site 1105097002145 metal binding site A [ion binding]; metal-binding site 1105097002146 DNA binding site [nucleotide binding] 1105097002147 putative AP binding site [nucleotide binding]; other site 1105097002148 putative metal binding site B [ion binding]; other site 1105097002149 Uncharacterized conserved protein [Function unknown]; Region: COG4095 1105097002150 GTP-binding protein Der; Reviewed; Region: PRK00093 1105097002151 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1105097002152 G1 box; other site 1105097002153 GTP/Mg2+ binding site [chemical binding]; other site 1105097002154 Switch I region; other site 1105097002155 G2 box; other site 1105097002156 Switch II region; other site 1105097002157 G3 box; other site 1105097002158 G4 box; other site 1105097002159 G5 box; other site 1105097002160 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1105097002161 G1 box; other site 1105097002162 GTP/Mg2+ binding site [chemical binding]; other site 1105097002163 Switch I region; other site 1105097002164 G2 box; other site 1105097002165 G3 box; other site 1105097002166 Switch II region; other site 1105097002167 G4 box; other site 1105097002168 G5 box; other site 1105097002169 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1105097002170 ABC1 family; Region: ABC1; pfam03109 1105097002171 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 1105097002172 active site 1105097002173 ATP binding site [chemical binding]; other site 1105097002174 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1105097002175 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 1105097002176 S-adenosylmethionine binding site [chemical binding]; other site 1105097002177 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 1105097002178 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 1105097002179 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1105097002180 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1105097002181 active site 1105097002182 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1105097002183 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1105097002184 active site 1105097002185 HIGH motif; other site 1105097002186 KMSKS motif; other site 1105097002187 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1105097002188 tRNA binding surface [nucleotide binding]; other site 1105097002189 anticodon binding site; other site 1105097002190 thymidylate kinase; Validated; Region: tmk; PRK00698 1105097002191 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 1105097002192 TMP-binding site; other site 1105097002193 ATP-binding site [chemical binding]; other site 1105097002194 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097002195 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 1105097002196 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12847 1105097002197 UbiA prenyltransferase family; Region: UbiA; pfam01040 1105097002198 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 1105097002199 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1105097002200 active site 1105097002201 HIGH motif; other site 1105097002202 nucleotide binding site [chemical binding]; other site 1105097002203 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1105097002204 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1105097002205 active site 1105097002206 KMSKS motif; other site 1105097002207 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1105097002208 tRNA binding surface [nucleotide binding]; other site 1105097002209 anticodon binding site; other site 1105097002210 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105097002211 LPS biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3475 1105097002212 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1105097002213 RmuC family; Region: RmuC; pfam02646 1105097002214 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1105097002215 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1105097002216 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 1105097002217 Walker A motif; other site 1105097002218 ATP binding site [chemical binding]; other site 1105097002219 Walker B motif; other site 1105097002220 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1105097002221 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1105097002222 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1105097002223 Coenzyme A binding pocket [chemical binding]; other site 1105097002224 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 1105097002225 Ligand Binding Site [chemical binding]; other site 1105097002226 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1105097002227 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1105097002228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097002229 Walker A/P-loop; other site 1105097002230 ATP binding site [chemical binding]; other site 1105097002231 Q-loop/lid; other site 1105097002232 ABC transporter signature motif; other site 1105097002233 Walker B; other site 1105097002234 D-loop; other site 1105097002235 H-loop/switch region; other site 1105097002236 Protein of unknown function (DUF2673); Region: DUF2673; pfam10880 1105097002237 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 1105097002238 putative substrate translocation pore; other site 1105097002239 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1105097002240 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1105097002241 FtsX-like permease family; Region: FtsX; pfam02687 1105097002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1105097002243 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1105097002244 Walker A/P-loop; other site 1105097002245 ATP binding site [chemical binding]; other site 1105097002246 Q-loop/lid; other site 1105097002247 ABC transporter signature motif; other site 1105097002248 Walker B; other site 1105097002249 D-loop; other site 1105097002250 H-loop/switch region; other site 1105097002251 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1105097002252 Domain of unknown function DUF21; Region: DUF21; pfam01595 1105097002253 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 1105097002254 Transporter associated domain; Region: CorC_HlyC; smart01091 1105097002255 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1105097002256 Rickettsia outer membrane protein B; Region: rOmpB; pfam12334 1105097002257 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1105097002258 Autotransporter beta-domain; Region: Autotransporter; smart00869 1105097002259 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1105097002260 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1105097002261 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1105097002262 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1105097002263 DNA binding residues [nucleotide binding] 1105097002264 Rickettsial palindromic element RPE3 domain; Region: RPE3; TIGR03775 1105097002265 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 1105097002266 IHF dimer interface [polypeptide binding]; other site 1105097002267 IHF - DNA interface [nucleotide binding]; other site 1105097002268 potential frameshift: common BLAST hit: gi|67459873|ref|YP_247495.1| patatin-like phospholipase 1105097002269 MULE transposase domain; Region: MULE; pfam10551 1105097002270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1105097002271 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1105097002272 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1105097002273 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1105097002274 catalytic residues [active] 1105097002275 catalytic nucleophile [active] 1105097002276 Presynaptic Site I dimer interface [polypeptide binding]; other site 1105097002277 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1105097002278 Synaptic Flat tetramer interface [polypeptide binding]; other site 1105097002279 Synaptic Site I dimer interface [polypeptide binding]; other site 1105097002280 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105097002281 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1105097002282 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1105097002283 conserved cys residue [active] 1105097002284 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 1105097002285 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105097002286 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105097002287 potential frameshift: common BLAST hit: gi|67459879|ref|YP_247501.1| transposase 1105097002288 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 1105097002289 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1105097002290 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1105097002291 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1105097002292 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1105097002293 putative acyl-acceptor binding pocket; other site 1105097002294 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1105097002295 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1105097002296 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1105097002297 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 1105097002298 nucleotide binding pocket [chemical binding]; other site 1105097002299 K-X-D-G motif; other site 1105097002300 catalytic site [active] 1105097002301 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1105097002302 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1105097002303 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 1105097002304 Dimer interface [polypeptide binding]; other site 1105097002305 BRCT sequence motif; other site 1105097002306 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1105097002307 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1105097002308 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1105097002309 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1105097002310 mce related protein; Region: MCE; pfam02470 1105097002311 hypothetical protein; Provisional; Region: PRK06630 1105097002312 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1105097002313 RNA/DNA hybrid binding site [nucleotide binding]; other site 1105097002314 active site 1105097002315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1105097002316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1105097002317 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1105097002318 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 1105097002319 CoA-binding site [chemical binding]; other site 1105097002320 ATP-binding [chemical binding]; other site 1105097002321 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1105097002322 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 1105097002323 active site 1105097002324 catalytic site [active] 1105097002325 substrate binding site [chemical binding]; other site 1105097002326 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 1105097002327 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105097002328 Part of AAA domain; Region: AAA_19; pfam13245 1105097002329 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1105097002330 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 1105097002331 Family description; Region: UvrD_C_2; pfam13538 1105097002332 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105097002333 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1105097002334 acetyl-CoA acetyltransferase; Provisional; Region: PRK06633 1105097002335 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1105097002336 dimer interface [polypeptide binding]; other site 1105097002337 active site 1105097002338 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1105097002339 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 1105097002340 TLC ATP/ADP transporter; Region: TLC; pfam03219 1105097002341 FOG: CBS domain [General function prediction only]; Region: COG0517 1105097002342 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 1105097002343 Transporter associated domain; Region: CorC_HlyC; smart01091 1105097002344 metal-binding heat shock protein; Provisional; Region: PRK00016 1105097002345 lipoyl synthase; Provisional; Region: PRK05481 1105097002346 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 1105097002347 FeS/SAM binding site; other site 1105097002348 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1105097002349 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 1105097002350 dimer interface [polypeptide binding]; other site 1105097002351 active site 1105097002352 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1105097002353 folate binding site [chemical binding]; other site 1105097002354 putative hydrolase; Provisional; Region: PRK11460 1105097002355 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1105097002356 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 1105097002357 putative GSH binding site [chemical binding]; other site 1105097002358 catalytic residues [active] 1105097002359 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1105097002360 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1105097002361 minor groove reading motif; other site 1105097002362 helix-hairpin-helix signature motif; other site 1105097002363 substrate binding pocket [chemical binding]; other site 1105097002364 active site 1105097002365 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1105097002366 Predicted methyltransferases [General function prediction only]; Region: COG0313 1105097002367 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1105097002368 putative SAM binding site [chemical binding]; other site 1105097002369 putative homodimer interface [polypeptide binding]; other site 1105097002370 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1105097002371 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1105097002372 putative ligand binding site [chemical binding]; other site 1105097002373 twin arginine translocase protein A; Provisional; Region: tatA; PRK01470 1105097002374 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1105097002375 tetramer interfaces [polypeptide binding]; other site 1105097002376 binuclear metal-binding site [ion binding]; other site 1105097002377 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1105097002378 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1105097002379 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1105097002380 aspartate kinase; Reviewed; Region: PRK06635 1105097002381 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 1105097002382 putative catalytic residues [active] 1105097002383 putative nucleotide binding site [chemical binding]; other site 1105097002384 putative aspartate binding site [chemical binding]; other site 1105097002385 Rickettsial palindromic element RPE1 domain; Region: RPE1; TIGR01045 1105097002386 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 1105097002387 putative allosteric regulatory residue; other site 1105097002388 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1105097002389 salt bridge; other site 1105097002390 non-specific DNA binding site [nucleotide binding]; other site 1105097002391 sequence-specific DNA binding site [nucleotide binding]; other site 1105097002392 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 1105097002393 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097002394 putative substrate translocation pore; other site 1105097002395 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1105097002396 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1105097002397 Helix-turn-helix domain; Region: HTH_25; pfam13413 1105097002398 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 1105097002399 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1105097002400 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1105097002401 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1105097002402 Adenovirus IVa2 protein; Region: Adeno_IVa2; pfam02456 1105097002403 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1105097002404 G1 box; other site 1105097002405 GTP/Mg2+ binding site [chemical binding]; other site 1105097002406 Switch I region; other site 1105097002407 G2 box; other site 1105097002408 Switch II region; other site 1105097002409 G3 box; other site 1105097002410 G4 box; other site 1105097002411 G5 box; other site 1105097002412 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1105097002413 recombinase A; Provisional; Region: recA; PRK09354 1105097002414 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 1105097002415 hexamer interface [polypeptide binding]; other site 1105097002416 Walker A motif; other site 1105097002417 ATP binding site [chemical binding]; other site 1105097002418 Walker B motif; other site 1105097002419 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1105097002420 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1105097002421 homotetramer interface [polypeptide binding]; other site 1105097002422 NAD(P) binding site [chemical binding]; other site 1105097002423 homodimer interface [polypeptide binding]; other site 1105097002424 active site 1105097002425 acyl carrier protein; Provisional; Region: acpP; PRK00982 1105097002426 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1105097002427 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 1105097002428 dimer interface [polypeptide binding]; other site 1105097002429 active site 1105097002430 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1105097002431 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 1105097002432 catalytic site [active] 1105097002433 G-X2-G-X-G-K; other site 1105097002434 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 1105097002435 sequence-specific DNA binding site [nucleotide binding]; other site 1105097002436 salt bridge; other site 1105097002437 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1105097002438 rod shape-determining protein MreC; Region: MreC; pfam04085 1105097002439 rod shape-determining protein MreB; Provisional; Region: PRK13927 1105097002440 MreB and similar proteins; Region: MreB_like; cd10225 1105097002441 nucleotide binding site [chemical binding]; other site 1105097002442 Mg binding site [ion binding]; other site 1105097002443 putative protofilament interaction site [polypeptide binding]; other site 1105097002444 RodZ interaction site [polypeptide binding]; other site 1105097002445 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105097002446 Predicted permeases [General function prediction only]; Region: COG0795 1105097002447 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1105097002448 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1105097002449 ligand binding site [chemical binding]; other site 1105097002450 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1105097002451 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 1105097002452 dimer interface [polypeptide binding]; other site 1105097002453 active site 1105097002454 CoA binding pocket [chemical binding]; other site 1105097002455 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1105097002456 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1105097002457 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1105097002458 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1105097002459 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 1105097002460 P loop; other site 1105097002461 GTP binding site [chemical binding]; other site 1105097002462 DNA polymerase I; Region: pola; TIGR00593 1105097002463 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1105097002464 active site 1105097002465 metal binding site 1 [ion binding]; metal-binding site 1105097002466 putative 5' ssDNA interaction site; other site 1105097002467 metal binding site 3; metal-binding site 1105097002468 metal binding site 2 [ion binding]; metal-binding site 1105097002469 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1105097002470 putative DNA binding site [nucleotide binding]; other site 1105097002471 putative metal binding site [ion binding]; other site 1105097002472 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1105097002473 active site 1105097002474 DNA binding site [nucleotide binding] 1105097002475 catalytic site [active] 1105097002476 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1105097002477 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1105097002478 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1105097002479 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1105097002480 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1105097002481 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1105097002482 putative active site [active] 1105097002483 putative PHP Thumb interface [polypeptide binding]; other site 1105097002484 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 1105097002485 generic binding surface II; other site 1105097002486 generic binding surface I; other site 1105097002487 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1105097002488 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1105097002489 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1105097002490 Protein of unknown function; Region: DUF3971; pfam13116 1105097002491 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1105097002492 muropeptide transporter; Validated; Region: ampG; cl17669 1105097002493 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 1105097002494 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1105097002495 seryl-tRNA synthetase; Provisional; Region: PRK05431 1105097002496 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1105097002497 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 1105097002498 dimer interface [polypeptide binding]; other site 1105097002499 active site 1105097002500 motif 1; other site 1105097002501 motif 2; other site 1105097002502 motif 3; other site 1105097002503 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1105097002504 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1105097002505 Integral membrane protein TerC family; Region: TerC; cl10468 1105097002506 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1105097002507 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1105097002508 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 1105097002509 S-adenosylmethionine binding site [chemical binding]; other site 1105097002510 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 1105097002511 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1105097002512 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1105097002513 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1105097002514 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1105097002515 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1105097002516 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097002517 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1105097002518 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1105097002519 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13541 1105097002520 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097002521 Walker A/P-loop; other site 1105097002522 ATP binding site [chemical binding]; other site 1105097002523 Q-loop/lid; other site 1105097002524 ABC transporter signature motif; other site 1105097002525 Walker B; other site 1105097002526 D-loop; other site 1105097002527 H-loop/switch region; other site 1105097002528 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1105097002529 4Fe-4S binding domain; Region: Fer4; cl02805 1105097002530 4Fe-4S binding domain; Region: Fer4; pfam00037 1105097002531 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1105097002532 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1105097002533 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1105097002534 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 1105097002535 catalytic loop [active] 1105097002536 iron binding site [ion binding]; other site 1105097002537 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1105097002538 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 1105097002539 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1105097002540 Predicted membrane protein [Function unknown]; Region: COG3671 1105097002541 aconitate hydratase; Validated; Region: PRK09277 1105097002542 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1105097002543 substrate binding site [chemical binding]; other site 1105097002544 ligand binding site [chemical binding]; other site 1105097002545 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 1105097002546 substrate binding site [chemical binding]; other site 1105097002547 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 1105097002548 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1105097002549 gamma subunit interface [polypeptide binding]; other site 1105097002550 epsilon subunit interface [polypeptide binding]; other site 1105097002551 LBP interface [polypeptide binding]; other site 1105097002552 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1105097002553 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105097002554 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 1105097002555 alpha subunit interaction interface [polypeptide binding]; other site 1105097002556 Walker A motif; other site 1105097002557 ATP binding site [chemical binding]; other site 1105097002558 Walker B motif; other site 1105097002559 inhibitor binding site; inhibition site 1105097002560 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105097002561 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1105097002562 core domain interface [polypeptide binding]; other site 1105097002563 delta subunit interface [polypeptide binding]; other site 1105097002564 epsilon subunit interface [polypeptide binding]; other site 1105097002565 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1105097002566 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1105097002567 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 1105097002568 beta subunit interaction interface [polypeptide binding]; other site 1105097002569 Walker A motif; other site 1105097002570 ATP binding site [chemical binding]; other site 1105097002571 Walker B motif; other site 1105097002572 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1105097002573 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1105097002574 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1105097002575 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1105097002576 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1105097002577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1105097002578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1105097002579 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1105097002580 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1105097002581 dimerization interface [polypeptide binding]; other site 1105097002582 DPS ferroxidase diiron center [ion binding]; other site 1105097002583 ion pore; other site 1105097002584 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1105097002585 Transglycosylase; Region: Transgly; pfam00912 1105097002586 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1105097002587 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1105097002588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1105097002589 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 1105097002590 FeS/SAM binding site; other site 1105097002591 TRAM domain; Region: TRAM; pfam01938 1105097002592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1105097002593 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105097002594 Bacterial SH3 domain; Region: SH3_4; pfam06347 1105097002595 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1105097002596 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1105097002597 TrkA-N domain; Region: TrkA_N; pfam02254 1105097002598 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1105097002599 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1105097002600 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 1105097002601 rRNA binding site [nucleotide binding]; other site 1105097002602 predicted 30S ribosome binding site; other site 1105097002603 Maf-like protein; Region: Maf; pfam02545 1105097002604 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 1105097002605 active site 1105097002606 dimer interface [polypeptide binding]; other site 1105097002607 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1105097002608 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1105097002609 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 1105097002610 active site 1105097002611 DNA binding site [nucleotide binding] 1105097002612 Int/Topo IB signature motif; other site 1105097002613 Phasin protein; Region: Phasin_2; pfam09361 1105097002614 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 1105097002615 PLD-like domain; Region: PLDc_2; pfam13091 1105097002616 putative active site [active] 1105097002617 catalytic site [active] 1105097002618 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1105097002619 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 1105097002620 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1105097002621 periplasmic folding chaperone; Provisional; Region: PRK10788 1105097002622 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1105097002623 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1105097002624 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1105097002625 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1105097002626 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 1105097002627 active site 1105097002628 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1105097002629 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 1105097002630 Mg++ binding site [ion binding]; other site 1105097002631 putative catalytic motif [active] 1105097002632 putative substrate binding site [chemical binding]; other site 1105097002633 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1105097002634 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105097002635 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1105097002636 Ferredoxin [Energy production and conversion]; Region: COG1146 1105097002637 4Fe-4S binding domain; Region: Fer4; cl02805 1105097002638 heme exporter protein CcmC; Region: ccmC; TIGR01191 1105097002639 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 1105097002640 nucleoside/Zn binding site; other site 1105097002641 dimer interface [polypeptide binding]; other site 1105097002642 catalytic motif [active] 1105097002643 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1105097002644 Cation efflux family; Region: Cation_efflux; cl00316 1105097002645 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1105097002646 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1105097002647 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1105097002648 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1105097002649 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105097002650 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1105097002651 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1105097002652 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1105097002653 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 1105097002654 dimer interface [polypeptide binding]; other site 1105097002655 ssDNA binding site [nucleotide binding]; other site 1105097002656 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1105097002657 hypothetical protein; Reviewed; Region: PRK01530 1105097002658 heat shock protein 90; Provisional; Region: PRK05218 1105097002659 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 1105097002660 ATP binding site [chemical binding]; other site 1105097002661 Mg2+ binding site [ion binding]; other site 1105097002662 G-X-G motif; other site 1105097002663 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1105097002664 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 1105097002665 substrate-cofactor binding pocket; other site 1105097002666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1105097002667 catalytic residue [active] 1105097002668 trigger factor; Provisional; Region: tig; PRK01490 1105097002669 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1105097002670 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1105097002671 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 1105097002672 GTP1/OBG; Region: GTP1_OBG; pfam01018 1105097002673 Obg GTPase; Region: Obg; cd01898 1105097002674 G1 box; other site 1105097002675 GTP/Mg2+ binding site [chemical binding]; other site 1105097002676 Switch I region; other site 1105097002677 G2 box; other site 1105097002678 G3 box; other site 1105097002679 Switch II region; other site 1105097002680 G4 box; other site 1105097002681 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 1105097002682 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1105097002683 dimer interface [polypeptide binding]; other site 1105097002684 active site 1105097002685 citrylCoA binding site [chemical binding]; other site 1105097002686 NADH binding [chemical binding]; other site 1105097002687 cationic pore residues; other site 1105097002688 oxalacetate/citrate binding site [chemical binding]; other site 1105097002689 coenzyme A binding site [chemical binding]; other site 1105097002690 catalytic triad [active] 1105097002691 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1105097002692 Fe-S cluster binding site [ion binding]; other site 1105097002693 active site 1105097002694 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1105097002695 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 1105097002696 RNA binding surface [nucleotide binding]; other site 1105097002697 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1105097002698 active site 1105097002699 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed; Region: PRK01544 1105097002700 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 1105097002701 S-adenosylmethionine binding site [chemical binding]; other site 1105097002702 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1105097002703 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1105097002704 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1105097002705 Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]; Region: GlyS; COG0751 1105097002706 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1105097002707 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 1105097002708 motif 1; other site 1105097002709 dimer interface [polypeptide binding]; other site 1105097002710 active site 1105097002711 motif 2; other site 1105097002712 motif 3; other site 1105097002713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1105097002714 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 1105097002715 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097002716 putative substrate translocation pore; other site 1105097002717 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1105097002718 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 1105097002719 motif 1; other site 1105097002720 active site 1105097002721 motif 2; other site 1105097002722 motif 3; other site 1105097002723 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1105097002724 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1105097002725 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1105097002726 dimerization interface 3.5A [polypeptide binding]; other site 1105097002727 active site 1105097002728 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1105097002729 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1105097002730 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1105097002731 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1105097002732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1105097002733 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1105097002734 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 1105097002735 DNA binding residues [nucleotide binding] 1105097002736 DNA primase, catalytic core; Region: dnaG; TIGR01391 1105097002737 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1105097002738 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1105097002739 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 1105097002740 active site 1105097002741 metal binding site [ion binding]; metal-binding site 1105097002742 interdomain interaction site; other site 1105097002743 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 1105097002744 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1105097002745 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1105097002746 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1105097002747 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105097002748 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1105097002749 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1105097002750 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1105097002751 ligand binding site [chemical binding]; other site 1105097002752 homodimer interface [polypeptide binding]; other site 1105097002753 NAD(P) binding site [chemical binding]; other site 1105097002754 trimer interface B [polypeptide binding]; other site 1105097002755 trimer interface A [polypeptide binding]; other site 1105097002756 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1105097002757 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1105097002758 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 1105097002759 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 1105097002760 Walker A motif; other site 1105097002761 ATP binding site [chemical binding]; other site 1105097002762 Walker B motif; other site 1105097002763 arginine finger; other site 1105097002764 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1105097002765 hypothetical protein; Validated; Region: PRK00153 1105097002766 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1105097002767 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1105097002768 catalytic motif [active] 1105097002769 Catalytic residue [active] 1105097002770 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1105097002771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1105097002772 Walker A/P-loop; other site 1105097002773 ATP binding site [chemical binding]; other site 1105097002774 Q-loop/lid; other site 1105097002775 ABC transporter signature motif; other site 1105097002776 Walker B; other site 1105097002777 D-loop; other site 1105097002778 H-loop/switch region; other site 1105097002779 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1105097002780 putative hydrolase; Provisional; Region: PRK02113 1105097002781 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 1105097002782 active site 1105097002783 Predicted permeases [General function prediction only]; Region: COG0795 1105097002784 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1105097002785 DNA polymerase III subunit chi; Provisional; Region: PRK06646 1105097002786 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 1105097002787 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1105097002788 metal binding site [ion binding]; metal-binding site 1105097002789 dimer interface [polypeptide binding]; other site 1105097002790 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1105097002791 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 1105097002792 putative active site [active] 1105097002793 lipoate-protein ligase B; Provisional; Region: PRK14347 1105097002794 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1105097002795 ribosomal protein L33, bacterial type; Region: rpmG_bact; TIGR01023 1105097002796 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1105097002797 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 1105097002798 ATP binding site [chemical binding]; other site 1105097002799 Mg2+ binding site [ion binding]; other site 1105097002800 G-X-G motif; other site 1105097002801 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 1105097002802 ATP binding site [chemical binding]; other site 1105097002803 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1105097002804 Zinc-finger domain; Region: zf-CHCC; cl01821 1105097002805 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 1105097002806 metabolite-proton symporter; Region: 2A0106; TIGR00883 1105097002807 putative substrate translocation pore; other site 1105097002808 Coproporphyrinogen III oxidase [Coenzyme metabolism]; Region: HemF; COG0408 1105097002809 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1105097002810 TIGR00701 family protein; Region: TIGR00701 1105097002811 ferrochelatase; Reviewed; Region: hemH; PRK00035 1105097002812 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 1105097002813 C-terminal domain interface [polypeptide binding]; other site 1105097002814 active site 1105097002815 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 1105097002816 active site 1105097002817 N-terminal domain interface [polypeptide binding]; other site 1105097002818 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 1105097002819 substrate binding site [chemical binding]; other site 1105097002820 active site