-- dump date 20140619_161243 -- class Genbank::misc_feature -- table misc_feature_note -- id note 880447000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14087 880447000002 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 880447000003 Walker A motif; other site 880447000004 ATP binding site [chemical binding]; other site 880447000005 Walker B motif; other site 880447000006 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 880447000007 DnaA box-binding interface [nucleotide binding]; other site 880447000008 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 880447000009 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 880447000010 putative DNA binding surface [nucleotide binding]; other site 880447000011 dimer interface [polypeptide binding]; other site 880447000012 beta-clamp/clamp loader binding surface; other site 880447000013 beta-clamp/translesion DNA polymerase binding surface; other site 880447000014 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 880447000015 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 880447000016 putative active site [active] 880447000017 putative metal binding site [ion binding]; other site 880447000018 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 880447000019 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 880447000020 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 880447000021 S-adenosylmethionine binding site [chemical binding]; other site 880447000022 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 880447000023 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 880447000024 nucleoside/Zn binding site; other site 880447000025 dimer interface [polypeptide binding]; other site 880447000026 catalytic motif [active] 880447000027 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 880447000028 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 880447000029 Walker A motif; other site 880447000030 ATP binding site [chemical binding]; other site 880447000031 Walker B motif; other site 880447000032 arginine finger; other site 880447000033 recombination protein RecR; Reviewed; Region: recR; PRK00076 880447000034 RecR protein; Region: RecR; pfam02132 880447000035 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 880447000036 putative active site [active] 880447000037 putative metal-binding site [ion binding]; other site 880447000038 tetramer interface [polypeptide binding]; other site 880447000039 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 880447000040 thymidylate kinase; Validated; Region: tmk; PRK00698 880447000041 TMP-binding site; other site 880447000042 ATP-binding site [chemical binding]; other site 880447000043 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 880447000044 DNA polymerase III subunit delta'; Validated; Region: PRK08485 880447000045 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 880447000046 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 880447000047 S-adenosylmethionine binding site [chemical binding]; other site 880447000048 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 880447000049 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 880447000050 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 880447000051 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 880447000052 Ligand Binding Site [chemical binding]; other site 880447000053 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 880447000054 FtsH Extracellular; Region: FtsH_ext; pfam06480 880447000055 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 880447000056 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880447000057 Walker A motif; other site 880447000058 ATP binding site [chemical binding]; other site 880447000059 Walker B motif; other site 880447000060 arginine finger; other site 880447000061 Peptidase family M41; Region: Peptidase_M41; pfam01434 880447000062 AAA domain; Region: AAA_14; pfam13173 880447000063 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 880447000064 Membrane transport protein; Region: Mem_trans; cl09117 880447000065 (R)-2-Hydroxyglutarate Dehydrogenase and related dehydrogenases, NAD-binding and catalytic domains; Region: HGDH_like; cd12184 880447000066 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880447000067 putative homodimer interface [polypeptide binding]; other site 880447000068 putative ligand binding site [chemical binding]; other site 880447000069 putative NAD binding site [chemical binding]; other site 880447000070 catalytic site [active] 880447000071 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000072 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000073 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447000074 FtsX-like permease family; Region: FtsX; pfam02687 880447000075 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880447000076 FtsX-like permease family; Region: FtsX; pfam02687 880447000077 GnsA/GnsB family; Region: GnsAB; pfam08178 880447000078 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 880447000079 dimerization interface [polypeptide binding]; other site 880447000080 domain crossover interface; other site 880447000081 redox-dependent activation switch; other site 880447000082 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880447000083 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880447000084 Walker A/P-loop; other site 880447000085 ATP binding site [chemical binding]; other site 880447000086 Q-loop/lid; other site 880447000087 ABC transporter signature motif; other site 880447000088 Walker B; other site 880447000089 D-loop; other site 880447000090 H-loop/switch region; other site 880447000091 azoreductase; Reviewed; Region: PRK01355 880447000092 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880447000093 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 880447000094 DNA-binding site [nucleotide binding]; DNA binding site 880447000095 RNA-binding motif; other site 880447000096 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 880447000097 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880447000098 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 880447000099 dimer interface [polypeptide binding]; other site 880447000100 ssDNA binding site [nucleotide binding]; other site 880447000101 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880447000102 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 880447000103 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 880447000104 Divergent AAA domain; Region: AAA_4; pfam04326 880447000105 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 880447000106 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 880447000107 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 880447000108 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 880447000109 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 880447000110 active site 880447000111 P-loop; other site 880447000112 phosphorylation site [posttranslational modification] 880447000113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880447000114 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 880447000115 NAD(P) binding site [chemical binding]; other site 880447000116 active site 880447000117 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 880447000118 active site 880447000119 phosphorylation site [posttranslational modification] 880447000120 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 880447000121 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 880447000122 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 880447000123 putative active site [active] 880447000124 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 880447000125 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 880447000126 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 880447000127 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 880447000128 C-terminal portion of the disrupted gene in MSB_A0074 that encode a lipoprotein gene (lppA/p72 family); interrupted by the insertion of a Tra Island, an integrated DNA containing MSB_A0042-MSB_A0073; lipoprotein ( LppA/P72 family)-interruption C; MSB_A0041 880447000129 HTH-like domain; Region: HTH_21; pfam13276 880447000130 Integrase core domain; Region: rve; pfam00665 880447000131 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 880447000132 IHF - DNA interface [nucleotide binding]; other site 880447000133 IHF dimer interface [polypeptide binding]; other site 880447000134 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000135 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000136 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447000137 Protein of unknown function (DUF974); Region: DUF974; pfam06159 880447000138 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880447000139 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000140 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447000141 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447000142 AAA-like domain; Region: AAA_10; pfam12846 880447000143 e3 binding domain; Region: E3_binding; pfam02817 880447000144 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 880447000145 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000146 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000147 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000148 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447000149 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 880447000150 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 880447000151 generic binding surface I; other site 880447000152 generic binding surface II; other site 880447000153 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447000154 Zn2+ binding site [ion binding]; other site 880447000155 Mg2+ binding site [ion binding]; other site 880447000156 replicative DNA helicase; Region: DnaB; TIGR00665 880447000157 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 880447000158 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 880447000159 Walker A motif; other site 880447000160 ATP binding site [chemical binding]; other site 880447000161 Walker B motif; other site 880447000162 DNA binding loops [nucleotide binding] 880447000163 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 880447000164 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 880447000165 P-loop; other site 880447000166 Magnesium ion binding site [ion binding]; other site 880447000167 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 880447000168 Plasmid replication protein; Region: Rep_2; pfam01719 880447000169 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880447000170 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 880447000171 dimer interface [polypeptide binding]; other site 880447000172 ssDNA binding site [nucleotide binding]; other site 880447000173 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880447000174 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 880447000175 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 880447000176 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 880447000177 active site 880447000178 HIGH motif; other site 880447000179 KMSKS motif; other site 880447000180 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 880447000181 tRNA binding surface [nucleotide binding]; other site 880447000182 anticodon binding site; other site 880447000183 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880447000184 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 880447000185 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880447000186 Walker A/P-loop; other site 880447000187 ATP binding site [chemical binding]; other site 880447000188 Q-loop/lid; other site 880447000189 ABC transporter signature motif; other site 880447000190 Walker B; other site 880447000191 D-loop; other site 880447000192 H-loop/switch region; other site 880447000193 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880447000194 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880447000195 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880447000196 TM-ABC transporter signature motif; other site 880447000197 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880447000198 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880447000199 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880447000200 TM-ABC transporter signature motif; other site 880447000201 DNA gyrase subunit A; Validated; Region: PRK05560 880447000202 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 880447000203 CAP-like domain; other site 880447000204 active site 880447000205 primary dimer interface [polypeptide binding]; other site 880447000206 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000207 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000208 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000209 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000210 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000211 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447000212 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 880447000213 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 880447000214 ATP binding site [chemical binding]; other site 880447000215 Mg2+ binding site [ion binding]; other site 880447000216 G-X-G motif; other site 880447000217 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 880447000218 anchoring element; other site 880447000219 dimer interface [polypeptide binding]; other site 880447000220 ATP binding site [chemical binding]; other site 880447000221 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 880447000222 active site 880447000223 putative metal-binding site [ion binding]; other site 880447000224 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880447000225 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 880447000226 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 880447000227 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 880447000228 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 880447000229 nucleotide binding region [chemical binding]; other site 880447000230 ATP-binding site [chemical binding]; other site 880447000231 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 880447000232 5'-3' exonuclease; Region: 53EXOc; smart00475 880447000233 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 880447000234 active site 880447000235 metal binding site 1 [ion binding]; metal-binding site 880447000236 putative 5' ssDNA interaction site; other site 880447000237 metal binding site 3; metal-binding site 880447000238 metal binding site 2 [ion binding]; metal-binding site 880447000239 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 880447000240 putative DNA binding site [nucleotide binding]; other site 880447000241 putative metal binding site [ion binding]; other site 880447000242 potential frameshift: common BLAST hit: gi|291320531|ref|YP_003515795.1| modification (methylase) protein of type Irestriction modification 880447000243 HsdM N-terminal domain; Region: HsdM_N; pfam12161 880447000244 potential frameshift: common BLAST hit: gi|148377836|ref|YP_001256712.1| modification (methylase) protein of type irestriction-modification 880447000245 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 880447000246 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880447000247 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 880447000248 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880447000249 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 880447000250 GIY-YIG motif/motif A; other site 880447000251 active site 880447000252 catalytic site [active] 880447000253 metal binding site [ion binding]; metal-binding site 880447000254 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 880447000255 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 880447000256 AAA domain; Region: AAA_14; pfam13173 880447000257 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 880447000258 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 880447000259 CoA-binding site [chemical binding]; other site 880447000260 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 880447000261 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 880447000262 RNA binding surface [nucleotide binding]; other site 880447000263 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 880447000264 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 880447000265 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 880447000266 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 880447000267 generic binding surface II; other site 880447000268 generic binding surface I; other site 880447000269 transcription antitermination factor NusB; Region: nusB; TIGR01951 880447000270 endonuclease IV; Provisional; Region: PRK01060 880447000271 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 880447000272 AP (apurinic/apyrimidinic) site pocket; other site 880447000273 DNA interaction; other site 880447000274 Metal-binding active site; metal-binding site 880447000275 Riboflavin kinase; Region: Flavokinase; smart00904 880447000276 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880447000277 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 880447000278 active site 880447000279 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 880447000280 active site 880447000281 tetramer interface; other site 880447000282 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 880447000283 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 880447000284 23S rRNA interface [nucleotide binding]; other site 880447000285 L7/L12 interface [polypeptide binding]; other site 880447000286 putative thiostrepton binding site; other site 880447000287 L25 interface [polypeptide binding]; other site 880447000288 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 880447000289 mRNA/rRNA interface [nucleotide binding]; other site 880447000290 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880447000291 Homeodomain-like domain; Region: HTH_23; cl17451 880447000292 potential frameshift: common BLAST hit: gi|42560788|ref|NP_975239.1| IS1296FJ transposase protein B 880447000293 Integrase core domain; Region: rve; pfam00665 880447000294 Integrase core domain; Region: rve_2; pfam13333 880447000295 potential frameshift: common BLAST hit: gi|42561519|ref|NP_975970.1| variable surface prolipoprotein 880447000296 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000297 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000298 Ribosomal protein L10 leader 880447000299 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 880447000300 23S rRNA interface [nucleotide binding]; other site 880447000301 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 880447000302 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 880447000303 L11 interface [polypeptide binding]; other site 880447000304 putative EF-Tu interaction site [polypeptide binding]; other site 880447000305 putative EF-G interaction site [polypeptide binding]; other site 880447000306 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 880447000307 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 880447000308 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 880447000309 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 880447000310 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 880447000311 RPB1 interaction site [polypeptide binding]; other site 880447000312 RPB10 interaction site [polypeptide binding]; other site 880447000313 RPB11 interaction site [polypeptide binding]; other site 880447000314 RPB3 interaction site [polypeptide binding]; other site 880447000315 RPB12 interaction site [polypeptide binding]; other site 880447000316 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 880447000317 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 880447000318 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 880447000319 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 880447000320 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 880447000321 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 880447000322 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 880447000323 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 880447000324 G-loop; other site 880447000325 DNA binding site [nucleotide binding] 880447000326 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447000327 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 880447000328 active site residue [active] 880447000329 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 880447000330 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 880447000331 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 880447000332 dimer interface [polypeptide binding]; other site 880447000333 active site 880447000334 glycine-pyridoxal phosphate binding site [chemical binding]; other site 880447000335 folate binding site [chemical binding]; other site 880447000336 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880447000337 active site 880447000338 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 880447000339 ATP synthase subunit C; Region: ATP-synt_C; cl00466 880447000340 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 880447000341 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 880447000342 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13436 880447000343 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 880447000344 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 880447000345 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880447000346 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 880447000347 beta subunit interaction interface [polypeptide binding]; other site 880447000348 Walker A motif; other site 880447000349 ATP binding site [chemical binding]; other site 880447000350 Walker B motif; other site 880447000351 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880447000352 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 880447000353 core domain interface [polypeptide binding]; other site 880447000354 delta subunit interface [polypeptide binding]; other site 880447000355 epsilon subunit interface [polypeptide binding]; other site 880447000356 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 880447000357 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880447000358 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 880447000359 alpha subunit interaction interface [polypeptide binding]; other site 880447000360 Walker A motif; other site 880447000361 ATP binding site [chemical binding]; other site 880447000362 Walker B motif; other site 880447000363 inhibitor binding site; inhibition site 880447000364 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880447000365 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 880447000366 gamma subunit interface [polypeptide binding]; other site 880447000367 epsilon subunit interface [polypeptide binding]; other site 880447000368 LBP interface [polypeptide binding]; other site 880447000369 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 880447000370 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 880447000371 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880447000372 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 880447000373 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880447000374 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 880447000375 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880447000376 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880447000377 nucleotide binding site [chemical binding]; other site 880447000378 Beta-lactamase; Region: Beta-lactamase; pfam00144 880447000379 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880447000380 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447000381 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 880447000382 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447000383 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447000384 active site turn [active] 880447000385 phosphorylation site [posttranslational modification] 880447000386 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 880447000387 SmpB-tmRNA interface; other site 880447000388 ribonuclease R; Region: RNase_R; TIGR02063 880447000389 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 880447000390 RNB domain; Region: RNB; pfam00773 880447000391 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 880447000392 RNA binding site [nucleotide binding]; other site 880447000393 Preprotein translocase SecG subunit; Region: SecG; cl09123 880447000394 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 880447000395 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 880447000396 dimer interface [polypeptide binding]; other site 880447000397 putative radical transfer pathway; other site 880447000398 diiron center [ion binding]; other site 880447000399 tyrosyl radical; other site 880447000400 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 880447000401 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 880447000402 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 880447000403 Class I ribonucleotide reductase; Region: RNR_I; cd01679 880447000404 active site 880447000405 dimer interface [polypeptide binding]; other site 880447000406 catalytic residues [active] 880447000407 effector binding site; other site 880447000408 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 880447000409 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880447000410 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 880447000411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880447000412 active site 880447000413 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 880447000414 putative active site [active] 880447000415 catalytic residue [active] 880447000416 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 880447000417 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 880447000418 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 880447000419 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 880447000420 replicative DNA helicase; Region: DnaB; TIGR00665 880447000421 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 880447000422 Walker A motif; other site 880447000423 ATP binding site [chemical binding]; other site 880447000424 Walker B motif; other site 880447000425 DNA binding loops [nucleotide binding] 880447000426 hypothetical protein; Provisional; Region: PRK09609 880447000427 hypothetical protein; Provisional; Region: PRK09609 880447000428 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 880447000429 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447000430 active site 880447000431 HIGH motif; other site 880447000432 nucleotide binding site [chemical binding]; other site 880447000433 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447000434 active site 880447000435 KMSKS motif; other site 880447000436 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880447000437 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880447000438 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 880447000439 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880447000440 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 880447000441 preprotein translocase, SecE subunit, bacterial; Region: secE_bact; TIGR00964 880447000442 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 880447000443 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 880447000444 putative homodimer interface [polypeptide binding]; other site 880447000445 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 880447000446 heterodimer interface [polypeptide binding]; other site 880447000447 homodimer interface [polypeptide binding]; other site 880447000448 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880447000449 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880447000450 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 880447000451 dimer interface [polypeptide binding]; other site 880447000452 conserved gate region; other site 880447000453 putative PBP binding loops; other site 880447000454 ABC-ATPase subunit interface; other site 880447000455 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880447000456 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880447000457 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 880447000458 dimer interface [polypeptide binding]; other site 880447000459 conserved gate region; other site 880447000460 putative PBP binding loops; other site 880447000461 ABC-ATPase subunit interface; other site 880447000462 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880447000463 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880447000464 Walker A/P-loop; other site 880447000465 ATP binding site [chemical binding]; other site 880447000466 Q-loop/lid; other site 880447000467 ABC transporter signature motif; other site 880447000468 Walker B; other site 880447000469 D-loop; other site 880447000470 H-loop/switch region; other site 880447000471 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880447000472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447000473 AAA domain; Region: AAA_21; pfam13304 880447000474 Walker A/P-loop; other site 880447000475 ATP binding site [chemical binding]; other site 880447000476 Q-loop/lid; other site 880447000477 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880447000478 ABC transporter signature motif; other site 880447000479 Walker B; other site 880447000480 D-loop; other site 880447000481 H-loop/switch region; other site 880447000482 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880447000483 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 880447000484 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880447000485 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880447000486 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880447000487 ABC transporter; Region: ABC_tran_2; pfam12848 880447000488 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880447000489 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880447000490 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 880447000491 active site 880447000492 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 880447000493 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 880447000494 tetramer interface [polypeptide binding]; other site 880447000495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880447000496 catalytic residue [active] 880447000497 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447000498 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 880447000499 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880447000500 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880447000501 active site 880447000502 trimer interface [polypeptide binding]; other site 880447000503 allosteric site; other site 880447000504 active site lid [active] 880447000505 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880447000506 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447000507 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 880447000508 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447000509 active site turn [active] 880447000510 phosphorylation site [posttranslational modification] 880447000511 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 880447000512 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880447000513 HIGH motif; other site 880447000514 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 880447000515 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880447000516 active site 880447000517 KMSKS motif; other site 880447000518 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 880447000519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447000520 Zn2+ binding site [ion binding]; other site 880447000521 Mg2+ binding site [ion binding]; other site 880447000522 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 880447000523 CTP synthetase; Validated; Region: pyrG; PRK05380 880447000524 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 880447000525 Catalytic site [active] 880447000526 active site 880447000527 UTP binding site [chemical binding]; other site 880447000528 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 880447000529 active site 880447000530 putative oxyanion hole; other site 880447000531 catalytic triad [active] 880447000532 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000533 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000534 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 880447000535 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 880447000536 intersubunit interface [polypeptide binding]; other site 880447000537 active site 880447000538 zinc binding site [ion binding]; other site 880447000539 Na+ binding site [ion binding]; other site 880447000540 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 880447000541 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880447000542 Walker A motif; other site 880447000543 ATP binding site [chemical binding]; other site 880447000544 Walker B motif; other site 880447000545 arginine finger; other site 880447000546 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 880447000547 active site 880447000548 catalytic triad [active] 880447000549 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880447000550 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880447000551 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880447000552 active site 880447000553 catalytic site [active] 880447000554 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 880447000555 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 880447000556 DHH family; Region: DHH; pfam01368 880447000557 DHHA1 domain; Region: DHHA1; pfam02272 880447000558 thymidine kinase; Provisional; Region: PRK04296 880447000559 peptide chain release factor 1; Validated; Region: prfA; PRK00591 880447000560 This domain is found in peptide chain release factors; Region: PCRF; smart00937 880447000561 RF-1 domain; Region: RF-1; pfam00472 880447000562 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 880447000563 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 880447000564 S-adenosylmethionine binding site [chemical binding]; other site 880447000565 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 880447000566 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 880447000567 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 880447000568 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 880447000569 putative active site [active] 880447000570 catalytic site [active] 880447000571 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 880447000572 putative active site [active] 880447000573 catalytic site [active] 880447000574 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 880447000575 S17 interaction site [polypeptide binding]; other site 880447000576 S8 interaction site; other site 880447000577 16S rRNA interaction site [nucleotide binding]; other site 880447000578 streptomycin interaction site [chemical binding]; other site 880447000579 23S rRNA interaction site [nucleotide binding]; other site 880447000580 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 880447000581 30S ribosomal protein S7; Validated; Region: PRK05302 880447000582 elongation factor G; Reviewed; Region: PRK00007 880447000583 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 880447000584 G1 box; other site 880447000585 putative GEF interaction site [polypeptide binding]; other site 880447000586 GTP/Mg2+ binding site [chemical binding]; other site 880447000587 Switch I region; other site 880447000588 G2 box; other site 880447000589 G3 box; other site 880447000590 Switch II region; other site 880447000591 G4 box; other site 880447000592 G5 box; other site 880447000593 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 880447000594 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 880447000595 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 880447000596 elongation factor Tu; Reviewed; Region: PRK00049 880447000597 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 880447000598 G1 box; other site 880447000599 GEF interaction site [polypeptide binding]; other site 880447000600 GTP/Mg2+ binding site [chemical binding]; other site 880447000601 Switch I region; other site 880447000602 G2 box; other site 880447000603 G3 box; other site 880447000604 Switch II region; other site 880447000605 G4 box; other site 880447000606 G5 box; other site 880447000607 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 880447000608 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 880447000609 Antibiotic Binding Site [chemical binding]; other site 880447000610 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 880447000611 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447000612 active site turn [active] 880447000613 phosphorylation site [posttranslational modification] 880447000614 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 880447000615 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 880447000616 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 880447000617 active site 880447000618 homotrimer interface [polypeptide binding]; other site 880447000619 catalytic site [active] 880447000620 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 880447000621 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 880447000622 interface (dimer of trimers) [polypeptide binding]; other site 880447000623 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 880447000624 Substrate-binding/catalytic site; other site 880447000625 Zn-binding sites [ion binding]; other site 880447000626 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000627 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000628 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 880447000629 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 880447000630 motif 1; other site 880447000631 active site 880447000632 motif 2; other site 880447000633 motif 3; other site 880447000634 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 880447000635 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880447000636 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 880447000637 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880447000638 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 880447000639 dimer interface [polypeptide binding]; other site 880447000640 conserved gate region; other site 880447000641 putative PBP binding loops; other site 880447000642 ABC-ATPase subunit interface; other site 880447000643 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880447000644 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 880447000645 dimer interface [polypeptide binding]; other site 880447000646 conserved gate region; other site 880447000647 putative PBP binding loops; other site 880447000648 ABC-ATPase subunit interface; other site 880447000649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447000650 AAA domain; Region: AAA_23; pfam13476 880447000651 Walker A/P-loop; other site 880447000652 ATP binding site [chemical binding]; other site 880447000653 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880447000654 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880447000655 Q-loop/lid; other site 880447000656 ABC transporter signature motif; other site 880447000657 Walker B; other site 880447000658 D-loop; other site 880447000659 H-loop/switch region; other site 880447000660 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880447000661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447000662 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 880447000663 Walker A/P-loop; other site 880447000664 ATP binding site [chemical binding]; other site 880447000665 Q-loop/lid; other site 880447000666 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880447000667 Q-loop/lid; other site 880447000668 ABC transporter signature motif; other site 880447000669 Walker B; other site 880447000670 D-loop; other site 880447000671 H-loop/switch region; other site 880447000672 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880447000673 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880447000674 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880447000675 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880447000676 RelB antitoxin; Region: RelB; cl01171 880447000677 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 880447000678 AAA domain; Region: AAA_14; pfam13173 880447000679 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 880447000680 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 880447000681 motif II; other site 880447000682 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447000683 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 880447000684 beta-phosphoglucomutase; Region: bPGM; TIGR01990 880447000685 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 880447000686 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 880447000687 homodimer interface [polypeptide binding]; other site 880447000688 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 880447000689 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 880447000690 active site 880447000691 homodimer interface [polypeptide binding]; other site 880447000692 catalytic site [active] 880447000693 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 880447000694 homodimer interface [polypeptide binding]; other site 880447000695 maltodextrin glucosidase; Provisional; Region: PRK10785 880447000696 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 880447000697 active site 880447000698 homodimer interface [polypeptide binding]; other site 880447000699 catalytic site [active] 880447000700 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 880447000701 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 880447000702 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 880447000703 dimer interface [polypeptide binding]; other site 880447000704 conserved gate region; other site 880447000705 putative PBP binding loops; other site 880447000706 ABC-ATPase subunit interface; other site 880447000707 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880447000708 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 880447000709 dimer interface [polypeptide binding]; other site 880447000710 conserved gate region; other site 880447000711 putative PBP binding loops; other site 880447000712 ABC-ATPase subunit interface; other site 880447000713 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 880447000714 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880447000715 Walker A/P-loop; other site 880447000716 ATP binding site [chemical binding]; other site 880447000717 Q-loop/lid; other site 880447000718 ABC transporter signature motif; other site 880447000719 Walker B; other site 880447000720 D-loop; other site 880447000721 H-loop/switch region; other site 880447000722 maltose phosphorylase; Provisional; Region: PRK13807 880447000723 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 880447000724 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 880447000725 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 880447000726 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 880447000727 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 880447000728 Ca binding site [ion binding]; other site 880447000729 active site 880447000730 catalytic site [active] 880447000731 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 880447000732 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880447000733 DNA-binding site [nucleotide binding]; DNA binding site 880447000734 UTRA domain; Region: UTRA; cl17743 880447000735 oligoendopeptidase F; Region: pepF; TIGR00181 880447000736 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 880447000737 active site 880447000738 Zn binding site [ion binding]; other site 880447000739 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 880447000740 interface (dimer of trimers) [polypeptide binding]; other site 880447000741 Substrate-binding/catalytic site; other site 880447000742 Zn-binding sites [ion binding]; other site 880447000743 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 880447000744 AAA domain; Region: AAA_14; pfam13173 880447000745 Chromate transporter; Region: Chromate_transp; pfam02417 880447000746 Chromate transporter; Region: Chromate_transp; cl17781 880447000747 Abi-like protein; Region: Abi_2; cl01988 880447000748 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880447000749 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 880447000750 dimer interface [polypeptide binding]; other site 880447000751 conserved gate region; other site 880447000752 putative PBP binding loops; other site 880447000753 ABC-ATPase subunit interface; other site 880447000754 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 880447000755 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880447000756 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 880447000757 dimer interface [polypeptide binding]; other site 880447000758 conserved gate region; other site 880447000759 putative PBP binding loops; other site 880447000760 ABC-ATPase subunit interface; other site 880447000761 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880447000762 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 880447000763 Walker A/P-loop; other site 880447000764 ATP binding site [chemical binding]; other site 880447000765 Q-loop/lid; other site 880447000766 ABC transporter signature motif; other site 880447000767 Walker B; other site 880447000768 D-loop; other site 880447000769 H-loop/switch region; other site 880447000770 TOBE domain; Region: TOBE_2; pfam08402 880447000771 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 880447000772 23S rRNA binding site [nucleotide binding]; other site 880447000773 L21 binding site [polypeptide binding]; other site 880447000774 L13 binding site [polypeptide binding]; other site 880447000775 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 880447000776 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 880447000777 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 880447000778 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 880447000779 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 880447000780 active site 880447000781 catalytic residues [active] 880447000782 metal binding site [ion binding]; metal-binding site 880447000783 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 880447000784 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 880447000785 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 880447000786 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 880447000787 catalytic site [active] 880447000788 G-X2-G-X-G-K; other site 880447000789 16S rRNA methyltransferase B; Provisional; Region: PRK14902 880447000790 NusB family; Region: NusB; pfam01029 880447000791 putative RNA binding site [nucleotide binding]; other site 880447000792 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 880447000793 S-adenosylmethionine binding site [chemical binding]; other site 880447000794 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880447000795 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 880447000796 cofactor binding site; other site 880447000797 DNA binding site [nucleotide binding] 880447000798 substrate interaction site [chemical binding]; other site 880447000799 Eco47II restriction endonuclease; Region: RE_Eco47II; pfam09553 880447000800 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 880447000801 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 880447000802 G1 box; other site 880447000803 putative GEF interaction site [polypeptide binding]; other site 880447000804 GTP/Mg2+ binding site [chemical binding]; other site 880447000805 Switch I region; other site 880447000806 G2 box; other site 880447000807 G3 box; other site 880447000808 Switch II region; other site 880447000809 G4 box; other site 880447000810 G5 box; other site 880447000811 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 880447000812 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 880447000813 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000814 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 880447000815 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 880447000816 putative active site [active] 880447000817 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 880447000818 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 880447000819 active site turn [active] 880447000820 phosphorylation site [posttranslational modification] 880447000821 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447000822 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 880447000823 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 880447000824 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 880447000825 putative active site [active] 880447000826 enolase; Provisional; Region: eno; PRK00077 880447000827 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 880447000828 dimer interface [polypeptide binding]; other site 880447000829 metal binding site [ion binding]; metal-binding site 880447000830 substrate binding pocket [chemical binding]; other site 880447000831 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 880447000832 active site 880447000833 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 880447000834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880447000835 active site 880447000836 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 880447000837 amphipathic channel; other site 880447000838 Asn-Pro-Ala signature motifs; other site 880447000839 glycerol kinase; Provisional; Region: glpK; PRK00047 880447000840 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 880447000841 N- and C-terminal domain interface [polypeptide binding]; other site 880447000842 active site 880447000843 MgATP binding site [chemical binding]; other site 880447000844 catalytic site [active] 880447000845 metal binding site [ion binding]; metal-binding site 880447000846 glycerol binding site [chemical binding]; other site 880447000847 homotetramer interface [polypeptide binding]; other site 880447000848 homodimer interface [polypeptide binding]; other site 880447000849 FBP binding site [chemical binding]; other site 880447000850 protein IIAGlc interface [polypeptide binding]; other site 880447000851 Predicted dehydrogenase [General function prediction only]; Region: COG0579 880447000852 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880447000853 6-phosphofructokinase; Provisional; Region: PRK03202 880447000854 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 880447000855 active site 880447000856 ADP/pyrophosphate binding site [chemical binding]; other site 880447000857 dimerization interface [polypeptide binding]; other site 880447000858 allosteric effector site; other site 880447000859 fructose-1,6-bisphosphate binding site; other site 880447000860 pyruvate kinase; Provisional; Region: PRK05826 880447000861 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 880447000862 domain interfaces; other site 880447000863 active site 880447000864 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 880447000865 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 880447000866 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 880447000867 active site 880447000868 dimer interface [polypeptide binding]; other site 880447000869 motif 1; other site 880447000870 motif 2; other site 880447000871 motif 3; other site 880447000872 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 880447000873 anticodon binding site; other site 880447000874 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 880447000875 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880447000876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880447000877 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880447000878 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 880447000879 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 880447000880 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 880447000881 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 880447000882 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 880447000883 tetramer interface [polypeptide binding]; other site 880447000884 TPP-binding site [chemical binding]; other site 880447000885 heterodimer interface [polypeptide binding]; other site 880447000886 phosphorylation loop region [posttranslational modification] 880447000887 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 880447000888 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 880447000889 alpha subunit interface [polypeptide binding]; other site 880447000890 TPP binding site [chemical binding]; other site 880447000891 heterodimer interface [polypeptide binding]; other site 880447000892 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880447000893 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880447000894 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 880447000895 E3 interaction surface; other site 880447000896 lipoyl attachment site [posttranslational modification]; other site 880447000897 e3 binding domain; Region: E3_binding; pfam02817 880447000898 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880447000899 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 880447000900 E3 interaction surface; other site 880447000901 lipoyl attachment site [posttranslational modification]; other site 880447000902 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 880447000903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880447000904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880447000905 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880447000906 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; pfam01515 880447000907 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 880447000908 propionate/acetate kinase; Provisional; Region: PRK12379 880447000909 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447000910 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK13964 880447000911 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447000912 active site 880447000913 nucleotide binding site [chemical binding]; other site 880447000914 HIGH motif; other site 880447000915 KMSKS motif; other site 880447000916 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 880447000917 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 880447000918 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 880447000919 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 880447000920 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; cd00210 880447000921 HPr interaction site; other site 880447000922 glycerol kinase (GK) interaction site [polypeptide binding]; other site 880447000923 active site 880447000924 phosphorylation site [posttranslational modification] 880447000925 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 880447000926 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 880447000927 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 880447000928 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 880447000929 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 880447000930 RNA binding surface [nucleotide binding]; other site 880447000931 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 880447000932 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 880447000933 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 880447000934 Ligand Binding Site [chemical binding]; other site 880447000935 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 880447000936 Active site serine [active] 880447000937 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 880447000938 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447000939 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 880447000940 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 880447000941 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 880447000942 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880447000943 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 880447000944 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 880447000945 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880447000946 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 880447000947 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 880447000948 G1 box; other site 880447000949 GTP/Mg2+ binding site [chemical binding]; other site 880447000950 Switch I region; other site 880447000951 G2 box; other site 880447000952 G3 box; other site 880447000953 Switch II region; other site 880447000954 G4 box; other site 880447000955 G5 box; other site 880447000956 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880447000957 classical (c) SDRs; Region: SDR_c; cd05233 880447000958 NAD(P) binding site [chemical binding]; other site 880447000959 active site 880447000960 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 880447000961 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 880447000962 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880447000963 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 880447000964 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 880447000965 GIY-YIG motif/motif A; other site 880447000966 active site 880447000967 catalytic site [active] 880447000968 putative DNA binding site [nucleotide binding]; other site 880447000969 metal binding site [ion binding]; metal-binding site 880447000970 UvrB/uvrC motif; Region: UVR; pfam02151 880447000971 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 880447000972 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 880447000973 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 880447000974 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 880447000975 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880447000976 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880447000977 classical (c) SDRs; Region: SDR_c; cd05233 880447000978 NAD(P) binding site [chemical binding]; other site 880447000979 active site 880447000980 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 880447000981 ATP-NAD kinase; Region: NAD_kinase; pfam01513 880447000982 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 880447000983 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447000984 active site 880447000985 HIGH motif; other site 880447000986 nucleotide binding site [chemical binding]; other site 880447000987 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880447000988 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 880447000989 active site 880447000990 KMSKS motif; other site 880447000991 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 880447000992 tRNA binding surface [nucleotide binding]; other site 880447000993 anticodon binding site; other site 880447000994 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 880447000995 Thiamine pyrophosphokinase; Region: TPK; cd07995 880447000996 active site 880447000997 dimerization interface [polypeptide binding]; other site 880447000998 thiamine binding site [chemical binding]; other site 880447000999 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 880447001000 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 880447001001 substrate binding site [chemical binding]; other site 880447001002 hexamer interface [polypeptide binding]; other site 880447001003 metal binding site [ion binding]; metal-binding site 880447001004 GTPase RsgA; Reviewed; Region: PRK00098 880447001005 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 880447001006 RNA binding site [nucleotide binding]; other site 880447001007 homodimer interface [polypeptide binding]; other site 880447001008 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 880447001009 GTPase/Zn-binding domain interface [polypeptide binding]; other site 880447001010 GTP/Mg2+ binding site [chemical binding]; other site 880447001011 G4 box; other site 880447001012 G5 box; other site 880447001013 G1 box; other site 880447001014 Switch I region; other site 880447001015 G2 box; other site 880447001016 G3 box; other site 880447001017 Switch II region; other site 880447001018 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 880447001019 Catalytic domain of Protein Kinases; Region: PKc; cd00180 880447001020 active site 880447001021 ATP binding site [chemical binding]; other site 880447001022 substrate binding site [chemical binding]; other site 880447001023 activation loop (A-loop); other site 880447001024 Protein phosphatase 2C; Region: PP2C; pfam00481 880447001025 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 880447001026 active site 880447001027 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 880447001028 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880447001029 Glycoprotease family; Region: Peptidase_M22; pfam00814 880447001030 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001031 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001032 FtsX-like permease family; Region: FtsX; pfam02687 880447001033 FtsX-like permease family; Region: FtsX; pfam02687 880447001034 prolyl-tRNA synthetase; Provisional; Region: PRK08661 880447001035 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_arch_euk; cd00778 880447001036 dimer interface [polypeptide binding]; other site 880447001037 motif 1; other site 880447001038 active site 880447001039 motif 2; other site 880447001040 motif 3; other site 880447001041 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 880447001042 anticodon binding site; other site 880447001043 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 880447001044 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 880447001045 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 880447001046 RNA/DNA hybrid binding site [nucleotide binding]; other site 880447001047 active site 880447001048 GTP-binding protein LepA; Provisional; Region: PRK05433 880447001049 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 880447001050 G1 box; other site 880447001051 putative GEF interaction site [polypeptide binding]; other site 880447001052 GTP/Mg2+ binding site [chemical binding]; other site 880447001053 Switch I region; other site 880447001054 G2 box; other site 880447001055 G3 box; other site 880447001056 Switch II region; other site 880447001057 G4 box; other site 880447001058 G5 box; other site 880447001059 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 880447001060 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 880447001061 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 880447001062 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 880447001063 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 880447001064 dimer interface [polypeptide binding]; other site 880447001065 anticodon binding site; other site 880447001066 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 880447001067 homodimer interface [polypeptide binding]; other site 880447001068 motif 1; other site 880447001069 active site 880447001070 motif 2; other site 880447001071 GAD domain; Region: GAD; pfam02938 880447001072 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 880447001073 active site 880447001074 motif 3; other site 880447001075 histidyl-tRNA synthetase; Region: hisS; TIGR00442 880447001076 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 880447001077 dimer interface [polypeptide binding]; other site 880447001078 motif 1; other site 880447001079 active site 880447001080 motif 2; other site 880447001081 motif 3; other site 880447001082 Ribosome-binding factor A; Region: RBFA; pfam02033 880447001083 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 880447001084 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 880447001085 RNA binding site [nucleotide binding]; other site 880447001086 active site 880447001087 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447001088 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 880447001089 active site 880447001090 nucleotide binding site [chemical binding]; other site 880447001091 HIGH motif; other site 880447001092 KMSKS motif; other site 880447001093 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 880447001094 Active site serine [active] 880447001095 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880447001096 Active site serine [active] 880447001097 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 880447001098 16S/18S rRNA binding site [nucleotide binding]; other site 880447001099 S13e-L30e interaction site [polypeptide binding]; other site 880447001100 25S rRNA binding site [nucleotide binding]; other site 880447001101 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 880447001102 translation initiation factor IF-2; Region: IF-2; TIGR00487 880447001103 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 880447001104 G1 box; other site 880447001105 putative GEF interaction site [polypeptide binding]; other site 880447001106 GTP/Mg2+ binding site [chemical binding]; other site 880447001107 Switch I region; other site 880447001108 G2 box; other site 880447001109 G3 box; other site 880447001110 Switch II region; other site 880447001111 G4 box; other site 880447001112 G5 box; other site 880447001113 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 880447001114 Translation-initiation factor 2; Region: IF-2; pfam11987 880447001115 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 880447001116 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 880447001117 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 880447001118 putative RNA binding cleft [nucleotide binding]; other site 880447001119 transcription termination factor NusA; Region: NusA; TIGR01953 880447001120 NusA N-terminal domain; Region: NusA_N; pfam08529 880447001121 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 880447001122 RNA binding site [nucleotide binding]; other site 880447001123 homodimer interface [polypeptide binding]; other site 880447001124 NusA-like KH domain; Region: KH_5; pfam13184 880447001125 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 880447001126 G-X-X-G motif; other site 880447001127 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 880447001128 putative oligomer interface [polypeptide binding]; other site 880447001129 putative RNA binding site [nucleotide binding]; other site 880447001130 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 880447001131 dimer interface [polypeptide binding]; other site 880447001132 FMN binding site [chemical binding]; other site 880447001133 DNA polymerase III PolC; Validated; Region: polC; PRK00448 880447001134 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 880447001135 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 880447001136 generic binding surface II; other site 880447001137 generic binding surface I; other site 880447001138 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 880447001139 active site 880447001140 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 880447001141 active site 880447001142 catalytic site [active] 880447001143 substrate binding site [chemical binding]; other site 880447001144 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 880447001145 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 880447001146 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 880447001147 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880447001148 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 880447001149 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 880447001150 active site 880447001151 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 880447001152 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 880447001153 active site 880447001154 HIGH motif; other site 880447001155 dimer interface [polypeptide binding]; other site 880447001156 KMSKS motif; other site 880447001157 Fic/DOC family; Region: Fic; pfam02661 880447001158 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; pfam09610 880447001159 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447001160 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; pfam09610 880447001161 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447001162 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; pfam09610 880447001163 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447001164 Protein of unknown function (DUF2714); Region: DUF2714; pfam10896 880447001165 F0F1 ATP synthase subunit alpha; Validated; Region: PRK07165 880447001166 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 880447001167 Walker A motif; other site 880447001168 ATP binding site [chemical binding]; other site 880447001169 Walker B motif; other site 880447001170 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 880447001171 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 880447001172 Walker A motif; other site 880447001173 ATP binding site [chemical binding]; other site 880447001174 Walker B motif; other site 880447001175 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880447001176 potential frameshift: common BLAST hit: gi|42561146|ref|NP_975597.1| prolipoprotein 880447001177 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 880447001178 active site 880447001179 dimerization interface [polypeptide binding]; other site 880447001180 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 880447001181 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 880447001182 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 880447001183 motif II; other site 880447001184 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447001185 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 880447001186 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880447001187 Walker A motif; other site 880447001188 ATP binding site [chemical binding]; other site 880447001189 Walker B motif; other site 880447001190 arginine finger; other site 880447001191 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 880447001192 Walker A motif; other site 880447001193 ATP binding site [chemical binding]; other site 880447001194 Walker B motif; other site 880447001195 arginine finger; other site 880447001196 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880447001197 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 880447001198 GrpE; Region: GrpE; pfam01025 880447001199 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 880447001200 dimer interface [polypeptide binding]; other site 880447001201 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 880447001202 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 880447001203 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880447001204 nucleotide binding site [chemical binding]; other site 880447001205 chaperone protein DnaJ; Provisional; Region: PRK14296 880447001206 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 880447001207 HSP70 interaction site [polypeptide binding]; other site 880447001208 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880447001209 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880447001210 dimer interface [polypeptide binding]; other site 880447001211 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 880447001212 rRNA interaction site [nucleotide binding]; other site 880447001213 S8 interaction site; other site 880447001214 putative laminin-1 binding site; other site 880447001215 elongation factor Ts; Provisional; Region: tsf; PRK09377 880447001216 UBA/TS-N domain; Region: UBA; pfam00627 880447001217 Elongation factor TS; Region: EF_TS; pfam00889 880447001218 Elongation factor TS; Region: EF_TS; pfam00889 880447001219 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 880447001220 putative nucleotide binding site [chemical binding]; other site 880447001221 uridine monophosphate binding site [chemical binding]; other site 880447001222 homohexameric interface [polypeptide binding]; other site 880447001223 ribosome recycling factor; Reviewed; Region: frr; PRK00083 880447001224 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 880447001225 hinge region; other site 880447001226 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 880447001227 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 880447001228 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 880447001229 active site 880447001230 HIGH motif; other site 880447001231 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447001232 KMSK motif region; other site 880447001233 tRNA binding surface [nucleotide binding]; other site 880447001234 DALR anticodon binding domain; Region: DALR_1; smart00836 880447001235 anticodon binding site; other site 880447001236 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 880447001237 FtsX-like permease family; Region: FtsX; pfam02687 880447001238 FtsX-like permease family; Region: FtsX; pfam02687 880447001239 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 880447001240 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 880447001241 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 880447001242 dimer interface [polypeptide binding]; other site 880447001243 motif 1; other site 880447001244 active site 880447001245 motif 2; other site 880447001246 motif 3; other site 880447001247 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 880447001248 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 880447001249 putative tRNA-binding site [nucleotide binding]; other site 880447001250 tRNA synthetase B5 domain; Region: B5; smart00874 880447001251 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 880447001252 motif 1; other site 880447001253 dimer interface [polypeptide binding]; other site 880447001254 active site 880447001255 motif 2; other site 880447001256 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 880447001257 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 880447001258 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 880447001259 MraZ protein; Region: MraZ; pfam02381 880447001260 MraW methylase family; Region: Methyltransf_5; cl17771 880447001261 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 880447001262 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 880447001263 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 880447001264 nucleotide binding site [chemical binding]; other site 880447001265 SulA interaction site; other site 880447001266 Protein of unknown function (DUF552); Region: DUF552; pfam04472 880447001267 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880447001268 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447001269 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 880447001270 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447001271 active site 880447001272 HIGH motif; other site 880447001273 nucleotide binding site [chemical binding]; other site 880447001274 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447001275 active site 880447001276 KMSKS motif; other site 880447001277 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 880447001278 tRNA binding surface [nucleotide binding]; other site 880447001279 anticodon binding site; other site 880447001280 lipoprotein signal peptidase; Provisional; Region: PRK14766 880447001281 lipoprotein signal peptidase; Provisional; Region: PRK14787 880447001282 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880447001283 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 880447001284 RNA binding surface [nucleotide binding]; other site 880447001285 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880447001286 active site 880447001287 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 880447001288 catalytic motif [active] 880447001289 Zn binding site [ion binding]; other site 880447001290 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 880447001291 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880447001292 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880447001293 putative acyl-acceptor binding pocket; other site 880447001294 Predicted methyltransferases [General function prediction only]; Region: COG0313 880447001295 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 880447001296 putative SAM binding site [chemical binding]; other site 880447001297 putative homodimer interface [polypeptide binding]; other site 880447001298 Ribosomal protein L21 leader 880447001299 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 880447001300 hypothetical protein; Provisional; Region: PRK14553 880447001301 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 880447001302 N-acetylneuraminate lyase; Provisional; Region: PRK04147 880447001303 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 880447001304 inhibitor site; inhibition site 880447001305 active site 880447001306 dimer interface [polypeptide binding]; other site 880447001307 catalytic residue [active] 880447001308 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 880447001309 Na binding site [ion binding]; other site 880447001310 Domain of unknown function (DUF386); Region: DUF386; cl01047 880447001311 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880447001312 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880447001313 nucleotide binding site [chemical binding]; other site 880447001314 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 880447001315 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 880447001316 putative active site cavity [active] 880447001317 hypothetical protein; Provisional; Region: PRK07205 880447001318 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 880447001319 active site 880447001320 metal binding site [ion binding]; metal-binding site 880447001321 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 880447001322 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 880447001323 ATP-binding site [chemical binding]; other site 880447001324 Sugar specificity; other site 880447001325 Pyrimidine base specificity; other site 880447001326 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 880447001327 active site 880447001328 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 880447001329 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 880447001330 active site 880447001331 DNA binding site [nucleotide binding] 880447001332 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 880447001333 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 880447001334 GTP/Mg2+ binding site [chemical binding]; other site 880447001335 G4 box; other site 880447001336 G5 box; other site 880447001337 G1 box; other site 880447001338 Switch I region; other site 880447001339 G2 box; other site 880447001340 G3 box; other site 880447001341 Switch II region; other site 880447001342 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 880447001343 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880447001344 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880447001345 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 880447001346 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 880447001347 Walker A motif; other site 880447001348 ATP binding site [chemical binding]; other site 880447001349 Walker B motif; other site 880447001350 arginine finger; other site 880447001351 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 880447001352 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 880447001353 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 880447001354 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 880447001355 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 880447001356 active site 880447001357 dimer interface [polypeptide binding]; other site 880447001358 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 880447001359 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880447001360 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 880447001361 NAD binding site [chemical binding]; other site 880447001362 dimer interface [polypeptide binding]; other site 880447001363 substrate binding site [chemical binding]; other site 880447001364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447001365 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 880447001366 nucleophilic elbow; other site 880447001367 catalytic triad; other site 880447001368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447001369 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447001370 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 880447001371 nucleophilic elbow; other site 880447001372 catalytic triad; other site 880447001373 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 880447001374 lipoyl attachment site [posttranslational modification]; other site 880447001375 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 880447001376 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 880447001377 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 880447001378 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 880447001379 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 880447001380 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 880447001381 putative active site [active] 880447001382 putative FMN binding site [chemical binding]; other site 880447001383 putative substrate binding site [chemical binding]; other site 880447001384 putative catalytic residue [active] 880447001385 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001386 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001387 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001388 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 880447001390 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880447001391 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 880447001392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447001393 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 880447001394 Walker A/P-loop; other site 880447001395 ATP binding site [chemical binding]; other site 880447001396 Q-loop/lid; other site 880447001397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447001398 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 880447001399 ABC transporter signature motif; other site 880447001400 Walker B; other site 880447001401 D-loop; other site 880447001402 H-loop/switch region; other site 880447001403 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 880447001404 AAA domain; Region: AAA_30; pfam13604 880447001405 Family description; Region: UvrD_C_2; pfam13538 880447001406 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 880447001407 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 880447001408 CAP-like domain; other site 880447001409 active site 880447001410 primary dimer interface [polypeptide binding]; other site 880447001411 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447001412 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880447001413 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 880447001414 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 880447001415 Mg2+ binding site [ion binding]; other site 880447001416 G-X-G motif; other site 880447001417 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 880447001418 anchoring element; other site 880447001419 dimer interface [polypeptide binding]; other site 880447001420 ATP binding site [chemical binding]; other site 880447001421 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 880447001422 active site 880447001423 putative metal-binding site [ion binding]; other site 880447001424 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880447001425 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 880447001426 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 880447001427 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 880447001428 active site 880447001429 P-loop; other site 880447001430 phosphorylation site [posttranslational modification] 880447001431 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 880447001432 active site 880447001433 phosphorylation site [posttranslational modification] 880447001434 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 880447001435 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 880447001436 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 880447001437 NADP-dependent glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PLN00412 880447001438 tetrameric interface [polypeptide binding]; other site 880447001439 activator binding site; other site 880447001440 NADP binding site [chemical binding]; other site 880447001441 substrate binding site [chemical binding]; other site 880447001442 catalytic residues [active] 880447001443 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880447001444 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 880447001445 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880447001446 dUTPase; Region: dUTPase_2; pfam08761 880447001447 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 880447001448 active site 880447001449 homodimer interface [polypeptide binding]; other site 880447001450 metal binding site [ion binding]; metal-binding site 880447001451 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 880447001452 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 880447001453 active site 880447001454 dimer interface [polypeptide binding]; other site 880447001455 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 880447001456 dimer interface [polypeptide binding]; other site 880447001457 active site 880447001458 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 880447001459 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 880447001460 active site 880447001461 Zn binding site [ion binding]; other site 880447001462 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 880447001463 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 880447001464 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 880447001465 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 880447001466 trimerization site [polypeptide binding]; other site 880447001467 active site 880447001468 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880447001469 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 880447001470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880447001471 catalytic residue [active] 880447001472 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 880447001473 HIT family signature motif; other site 880447001474 catalytic residue [active] 880447001475 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 880447001476 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 880447001477 generic binding surface II; other site 880447001478 generic binding surface I; other site 880447001479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447001480 Zn2+ binding site [ion binding]; other site 880447001481 Mg2+ binding site [ion binding]; other site 880447001482 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 880447001483 ligand binding site [chemical binding]; other site 880447001484 active site 880447001485 UGI interface [polypeptide binding]; other site 880447001486 catalytic site [active] 880447001487 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 880447001488 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 880447001489 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 880447001490 Glucose inhibited division protein A; Region: GIDA; pfam01134 880447001491 CutC family; Region: CutC; cl01218 880447001492 S-adenosylmethionine synthetase; Validated; Region: PRK05250 880447001493 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 880447001494 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 880447001495 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 880447001496 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 880447001497 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880447001498 putative active site [active] 880447001499 metal binding site [ion binding]; metal-binding site 880447001500 homodimer binding site [polypeptide binding]; other site 880447001501 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 880447001502 putative DNA-binding protein; Validated; Region: PRK00118 880447001503 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 880447001504 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 880447001505 P loop; other site 880447001506 GTP binding site [chemical binding]; other site 880447001507 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 880447001508 PhoU domain; Region: PhoU; pfam01895 880447001509 PhoU domain; Region: PhoU; pfam01895 880447001510 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 880447001511 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 880447001512 Walker A/P-loop; other site 880447001513 ATP binding site [chemical binding]; other site 880447001514 Q-loop/lid; other site 880447001515 ABC transporter signature motif; other site 880447001516 Walker B; other site 880447001517 D-loop; other site 880447001518 H-loop/switch region; other site 880447001519 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 880447001520 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 880447001521 dimer interface [polypeptide binding]; other site 880447001522 conserved gate region; other site 880447001523 putative PBP binding loops; other site 880447001524 ABC-ATPase subunit interface; other site 880447001525 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 880447001526 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 880447001527 dimer interface [polypeptide binding]; other site 880447001528 conserved gate region; other site 880447001529 putative PBP binding loops; other site 880447001530 ABC-ATPase subunit interface; other site 880447001531 PBP superfamily domain; Region: PBP_like_2; cl17296 880447001532 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 880447001533 Asp23 family; Region: Asp23; cl00574 880447001534 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 880447001535 DAK2 domain; Region: Dak2; pfam02734 880447001536 putative phosphate acyltransferase; Provisional; Region: PRK05331 880447001537 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 880447001538 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 880447001539 dimerization interface [polypeptide binding]; other site 880447001540 active site 880447001541 metal binding site [ion binding]; metal-binding site 880447001542 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 880447001543 dsRNA binding site [nucleotide binding]; other site 880447001544 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 880447001545 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001546 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447001547 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 880447001548 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880447001549 Walker A/P-loop; other site 880447001550 ATP binding site [chemical binding]; other site 880447001551 Q-loop/lid; other site 880447001552 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 880447001553 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880447001554 ABC transporter signature motif; other site 880447001555 Walker B; other site 880447001556 D-loop; other site 880447001557 H-loop/switch region; other site 880447001558 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 880447001559 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447001560 Zn2+ binding site [ion binding]; other site 880447001561 Mg2+ binding site [ion binding]; other site 880447001562 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 880447001563 synthetase active site [active] 880447001564 NTP binding site [chemical binding]; other site 880447001565 metal binding site [ion binding]; metal-binding site 880447001566 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 880447001567 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 880447001568 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880447001569 active site 880447001570 N-terminal domain of the protein encoded by the Drosophila tweety gene and related proteins, a family of chloride ion channels; Region: Tweety_N; cl12141 880447001571 Protein export membrane protein; Region: SecD_SecF; cl14618 880447001572 Uncharacterized conserved protein [Function unknown]; Region: COG1284 880447001573 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 880447001574 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 880447001575 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880447001576 ATP binding site [chemical binding]; other site 880447001577 putative Mg++ binding site [ion binding]; other site 880447001578 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 880447001579 nucleotide binding region [chemical binding]; other site 880447001580 ATP-binding site [chemical binding]; other site 880447001581 Uncharacterized conserved protein [Function unknown]; Region: COG0327 880447001582 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 880447001583 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 880447001584 Family of unknown function (DUF633); Region: DUF633; pfam04816 880447001585 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 880447001586 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880447001587 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 880447001588 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 880447001589 DNA binding residues [nucleotide binding] 880447001590 DNA primase, catalytic core; Region: dnaG; TIGR01391 880447001591 CHC2 zinc finger; Region: zf-CHC2; cl17510 880447001592 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 880447001593 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 880447001594 active site 880447001595 metal binding site [ion binding]; metal-binding site 880447001596 interdomain interaction site; other site 880447001597 glycyl-tRNA synthetase; Provisional; Region: PRK04173 880447001598 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 880447001599 dimer interface [polypeptide binding]; other site 880447001600 motif 1; other site 880447001601 active site 880447001602 motif 2; other site 880447001603 motif 3; other site 880447001604 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 880447001605 anticodon binding site; other site 880447001606 Recombination protein O N terminal; Region: RecO_N; pfam11967 880447001607 DNA repair protein RecO; Region: reco; TIGR00613 880447001608 Recombination protein O C terminal; Region: RecO_C; pfam02565 880447001609 GTPase Era; Reviewed; Region: era; PRK00089 880447001610 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 880447001611 G1 box; other site 880447001612 GTP/Mg2+ binding site [chemical binding]; other site 880447001613 Switch I region; other site 880447001614 G2 box; other site 880447001615 Switch II region; other site 880447001616 G3 box; other site 880447001617 G4 box; other site 880447001618 G5 box; other site 880447001619 probable rRNA maturation factor YbeY; Region: TIGR00043 880447001620 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 880447001621 putative active site [active] 880447001622 DJ-1 family protein; Region: not_thiJ; TIGR01383 880447001623 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 880447001624 conserved cys residue [active] 880447001625 FtsX-like permease family; Region: FtsX; pfam02687 880447001626 FtsX-like permease family; Region: FtsX; pfam02687 880447001627 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 880447001628 potential frameshift: common BLAST hit: gi|83319880|ref|YP_424486.1| lipoprotein 880447001629 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880447001630 recombination factor protein RarA; Reviewed; Region: PRK13342 880447001631 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 880447001632 Walker A motif; other site 880447001633 ATP binding site [chemical binding]; other site 880447001634 Walker B motif; other site 880447001635 arginine finger; other site 880447001636 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880447001637 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 880447001638 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 880447001639 Walker A motif; other site 880447001640 ATP binding site [chemical binding]; other site 880447001641 Walker B motif; other site 880447001642 arginine finger; other site 880447001643 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 880447001644 trigger factor; Region: tig; TIGR00115 880447001645 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880447001646 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 880447001647 translation elongation factor P; Region: efp; TIGR00038 880447001648 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 880447001649 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 880447001650 RNA binding site [nucleotide binding]; other site 880447001651 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 880447001652 RNA binding site [nucleotide binding]; other site 880447001653 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 880447001654 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 880447001655 putative active site [active] 880447001656 substrate binding site [chemical binding]; other site 880447001657 putative cosubstrate binding site; other site 880447001658 catalytic site [active] 880447001659 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 880447001660 substrate binding site [chemical binding]; other site 880447001661 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 880447001662 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 880447001663 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 880447001664 Protein of unknown function (DUF342); Region: DUF342; pfam03961 880447001665 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 880447001666 active site 880447001667 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 880447001668 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 880447001669 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 880447001670 active site 880447001671 (T/H)XGH motif; other site 880447001672 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447001673 Zn2+ binding site [ion binding]; other site 880447001674 Mg2+ binding site [ion binding]; other site 880447001675 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 880447001676 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 880447001677 homodimer interface [polypeptide binding]; other site 880447001678 NAD binding pocket [chemical binding]; other site 880447001679 ATP binding pocket [chemical binding]; other site 880447001680 Mg binding site [ion binding]; other site 880447001681 active-site loop [active] 880447001682 GTPase CgtA; Reviewed; Region: obgE; PRK12297 880447001683 GTP1/OBG; Region: GTP1_OBG; pfam01018 880447001684 Obg GTPase; Region: Obg; cd01898 880447001685 G1 box; other site 880447001686 GTP/Mg2+ binding site [chemical binding]; other site 880447001687 Switch I region; other site 880447001688 G2 box; other site 880447001689 G3 box; other site 880447001690 Switch II region; other site 880447001691 G4 box; other site 880447001692 G5 box; other site 880447001693 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 880447001694 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880447001695 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880447001696 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 880447001697 Walker A/P-loop; other site 880447001698 ATP binding site [chemical binding]; other site 880447001699 Q-loop/lid; other site 880447001700 ABC transporter signature motif; other site 880447001701 Walker B; other site 880447001702 D-loop; other site 880447001703 H-loop/switch region; other site 880447001704 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880447001705 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880447001706 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 880447001707 Walker A/P-loop; other site 880447001708 ATP binding site [chemical binding]; other site 880447001709 Q-loop/lid; other site 880447001710 ABC transporter signature motif; other site 880447001711 Walker B; other site 880447001712 D-loop; other site 880447001713 H-loop/switch region; other site 880447001714 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 880447001715 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 880447001716 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 880447001717 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001718 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 880447001719 active site residue [active] 880447001720 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 880447001721 RNA/DNA hybrid binding site [nucleotide binding]; other site 880447001722 active site 880447001723 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 880447001724 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 880447001725 GTP/Mg2+ binding site [chemical binding]; other site 880447001726 G4 box; other site 880447001727 G5 box; other site 880447001728 G1 box; other site 880447001729 Switch I region; other site 880447001730 G2 box; other site 880447001731 G3 box; other site 880447001732 Switch II region; other site 880447001733 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 880447001734 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 880447001735 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 880447001736 RimM N-terminal domain; Region: RimM; pfam01782 880447001737 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 880447001738 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 880447001739 signal recognition particle protein; Region: ffh; TIGR00959 880447001740 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 880447001741 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 880447001742 P loop; other site 880447001743 GTP binding site [chemical binding]; other site 880447001744 Signal peptide binding domain; Region: SRP_SPB; pfam02978 880447001745 phosphodiesterase; Provisional; Region: PRK12704 880447001746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880447001747 Zn2+ binding site [ion binding]; other site 880447001748 Mg2+ binding site [ion binding]; other site 880447001749 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 880447001750 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 880447001751 hexamer interface [polypeptide binding]; other site 880447001752 Walker A motif; other site 880447001753 ATP binding site [chemical binding]; other site 880447001754 Walker B motif; other site 880447001755 Competence-damaged protein; Region: CinA; pfam02464 880447001756 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001757 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001758 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001759 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001760 cell division protein GpsB; Provisional; Region: PRK14127 880447001761 DivIVA domain; Region: DivI1A_domain; TIGR03544 880447001762 Recombination protein U; Region: RecU; pfam03838 880447001763 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 880447001764 IHF dimer interface [polypeptide binding]; other site 880447001765 IHF - DNA interface [nucleotide binding]; other site 880447001766 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 880447001767 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880447001768 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 880447001769 GTP-binding protein Der; Reviewed; Region: PRK00093 880447001770 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 880447001771 G1 box; other site 880447001772 GTP/Mg2+ binding site [chemical binding]; other site 880447001773 Switch I region; other site 880447001774 G2 box; other site 880447001775 Switch II region; other site 880447001776 G3 box; other site 880447001777 G4 box; other site 880447001778 G5 box; other site 880447001779 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 880447001780 G1 box; other site 880447001781 GTP/Mg2+ binding site [chemical binding]; other site 880447001782 Switch I region; other site 880447001783 G2 box; other site 880447001784 G3 box; other site 880447001785 Switch II region; other site 880447001786 G4 box; other site 880447001787 G5 box; other site 880447001788 Cytidylate kinase [Nucleotide transport and metabolism]; Region: Cmk; COG0283 880447001789 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 880447001790 CMP-binding site; other site 880447001791 The sites determining sugar specificity; other site 880447001792 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 880447001793 inorganic pyrophosphatase; Provisional; Region: PRK02230 880447001794 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 880447001795 dimer interface [polypeptide binding]; other site 880447001796 substrate binding site [chemical binding]; other site 880447001797 metal binding sites [ion binding]; metal-binding site 880447001798 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 880447001799 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447001800 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001801 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001802 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001803 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001804 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001805 potential frameshift: common BLAST hit: gi|83320021|ref|YP_424555.1| ABC transporter permease 880447001806 potential frameshift: common BLAST hit: gi|42560938|ref|NP_975389.1| Na+ ABC transporter, ATP-binding component 880447001807 Integrase core domain; Region: rve; pfam00665 880447001808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447001809 Walker A/P-loop; other site 880447001810 ATP binding site [chemical binding]; other site 880447001811 Q-loop/lid; other site 880447001812 ABC transporter signature motif; other site 880447001813 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 880447001814 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 880447001815 substrate binding site [chemical binding]; other site 880447001816 hexamer interface [polypeptide binding]; other site 880447001817 metal binding site [ion binding]; metal-binding site 880447001818 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 880447001819 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 880447001820 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 880447001821 active site 880447001822 P-loop; other site 880447001823 phosphorylation site [posttranslational modification] 880447001824 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 880447001825 active site 880447001826 phosphorylation site [posttranslational modification] 880447001827 hypothetical protein; Provisional; Region: PRK12378 880447001828 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 880447001829 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 880447001830 Substrate-binding site [chemical binding]; other site 880447001831 Substrate specificity [chemical binding]; other site 880447001832 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 880447001833 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 880447001834 RNA binding surface [nucleotide binding]; other site 880447001835 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 880447001836 active site 880447001837 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 880447001838 ScpA/B protein; Region: ScpA_ScpB; cl00598 880447001839 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 880447001840 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 880447001841 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 880447001842 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 880447001843 TPP-binding site [chemical binding]; other site 880447001844 dimer interface [polypeptide binding]; other site 880447001845 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 880447001846 PYR/PP interface [polypeptide binding]; other site 880447001847 dimer interface [polypeptide binding]; other site 880447001848 TPP binding site [chemical binding]; other site 880447001849 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880447001850 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 880447001851 Glucose inhibited division protein A; Region: GIDA; pfam01134 880447001852 RmuC family; Region: RmuC; pfam02646 880447001853 Predicted ATPase [General function prediction only]; Region: COG5293 880447001854 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 880447001855 DNA polymerase III PolC; Validated; Region: polC; PRK00448 880447001856 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 880447001857 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 880447001858 intersubunit interface [polypeptide binding]; other site 880447001859 active site 880447001860 zinc binding site [ion binding]; other site 880447001861 Na+ binding site [ion binding]; other site 880447001862 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 880447001863 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 880447001864 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 880447001865 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 880447001866 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447001867 active site turn [active] 880447001868 phosphorylation site [posttranslational modification] 880447001869 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447001870 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 880447001871 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 880447001872 putative substrate binding site [chemical binding]; other site 880447001873 putative ATP binding site [chemical binding]; other site 880447001874 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 880447001875 Family description; Region: UvrD_C_2; pfam13538 880447001876 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 880447001877 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001878 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 880447001879 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 880447001880 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 880447001881 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 880447001882 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001883 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001884 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447001885 LemA family; Region: LemA; cl00742 880447001886 Herpesvirus large structural phosphoprotein UL32; Region: Herpes_UL32; pfam06070 880447001887 Phosphoglycerate kinase; Region: PGK; pfam00162 880447001888 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 880447001889 substrate binding site [chemical binding]; other site 880447001890 hinge regions; other site 880447001891 ADP binding site [chemical binding]; other site 880447001892 catalytic site [active] 880447001893 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 880447001894 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 880447001895 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 880447001896 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 880447001897 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880447001898 Walker A motif; other site 880447001899 ATP binding site [chemical binding]; other site 880447001900 Walker B motif; other site 880447001901 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 880447001902 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 880447001903 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 880447001904 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 880447001905 DNA binding site [nucleotide binding] 880447001906 catalytic residue [active] 880447001907 H2TH interface [polypeptide binding]; other site 880447001908 putative catalytic residues [active] 880447001909 turnover-facilitating residue; other site 880447001910 intercalation triad [nucleotide binding]; other site 880447001911 8OG recognition residue [nucleotide binding]; other site 880447001912 putative reading head residues; other site 880447001913 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 880447001914 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 880447001915 DNA polymerase I; Provisional; Region: PRK05755 880447001916 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 880447001917 active site 880447001918 metal binding site 1 [ion binding]; metal-binding site 880447001919 putative 5' ssDNA interaction site; other site 880447001920 metal binding site 3; metal-binding site 880447001921 metal binding site 2 [ion binding]; metal-binding site 880447001922 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 880447001923 putative DNA binding site [nucleotide binding]; other site 880447001924 putative metal binding site [ion binding]; other site 880447001925 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 880447001926 active site 880447001927 catalytic site [active] 880447001928 substrate binding site [chemical binding]; other site 880447001929 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 880447001930 active site 880447001931 DNA binding site [nucleotide binding] 880447001932 catalytic site [active] 880447001933 DNA polymerase III DnaE; Validated; Region: dnaE; PRK07135 880447001934 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 880447001935 active site 880447001936 PHP Thumb interface [polypeptide binding]; other site 880447001937 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 880447001938 generic binding surface I; other site 880447001939 generic binding surface II; other site 880447001940 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 880447001941 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 880447001942 active site 880447001943 HIGH motif; other site 880447001944 dimer interface [polypeptide binding]; other site 880447001945 KMSKS motif; other site 880447001946 RAVE protein 1 C terminal; Region: Rav1p_C; pfam12234 880447001947 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; cl09940 880447001948 RNA binding surface [nucleotide binding]; other site 880447001949 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 880447001950 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 880447001951 active site 880447001952 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 880447001953 putative tRNA-binding site [nucleotide binding]; other site 880447001954 EDD domain protein, DegV family; Region: DegV; TIGR00762 880447001955 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 880447001956 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 880447001957 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 880447001958 putative DNA binding helix; other site 880447001959 metal binding site 2 [ion binding]; metal-binding site 880447001960 metal binding site 1 [ion binding]; metal-binding site 880447001961 dimer interface [polypeptide binding]; other site 880447001962 structural Zn2+ binding site [ion binding]; other site 880447001963 carbamate kinase; Reviewed; Region: PRK12686 880447001964 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 880447001965 putative substrate binding site [chemical binding]; other site 880447001966 nucleotide binding site [chemical binding]; other site 880447001967 nucleotide binding site [chemical binding]; other site 880447001968 homodimer interface [polypeptide binding]; other site 880447001969 agmatine deiminase; Provisional; Region: PRK13551 880447001970 agmatine deiminase; Region: agmatine_aguA; TIGR03380 880447001971 Amino acid permease; Region: AA_permease_2; pfam13520 880447001972 putrescine carbamoyltransferase; Provisional; Region: PRK02255 880447001973 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880447001974 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880447001975 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880447001976 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880447001977 Walker A/P-loop; other site 880447001978 ATP binding site [chemical binding]; other site 880447001979 Q-loop/lid; other site 880447001980 ABC transporter signature motif; other site 880447001981 Walker B; other site 880447001982 D-loop; other site 880447001983 H-loop/switch region; other site 880447001984 HTH-like domain; Region: HTH_21; pfam13276 880447001985 Integrase core domain; Region: rve; pfam00665 880447001986 Integrase core domain; Region: rve_2; pfam13333 880447001987 Helix-turn-helix domain; Region: HTH_28; pfam13518 880447001988 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 880447001989 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 880447001990 HIGH motif; other site 880447001991 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880447001992 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880447001993 active site 880447001994 KMSKS motif; other site 880447001995 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 880447001996 tRNA binding surface [nucleotide binding]; other site 880447001997 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 880447001998 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 880447001999 23S rRNA interface [nucleotide binding]; other site 880447002000 L3 interface [polypeptide binding]; other site 880447002001 FtsX-like permease family; Region: FtsX; pfam02687 880447002002 FtsX-like permease family; Region: FtsX; pfam02687 880447002003 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 880447002004 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880447002005 active site 880447002006 Cobalt transport protein; Region: CbiQ; cl00463 880447002007 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 880447002008 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13645 880447002009 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 880447002010 Walker A/P-loop; other site 880447002011 ATP binding site [chemical binding]; other site 880447002012 Q-loop/lid; other site 880447002013 ABC transporter signature motif; other site 880447002014 Walker B; other site 880447002015 D-loop; other site 880447002016 H-loop/switch region; other site 880447002017 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 880447002018 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 880447002019 Walker A/P-loop; other site 880447002020 ATP binding site [chemical binding]; other site 880447002021 Q-loop/lid; other site 880447002022 ABC transporter signature motif; other site 880447002023 Walker B; other site 880447002024 D-loop; other site 880447002025 H-loop/switch region; other site 880447002026 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 880447002027 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 880447002028 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 880447002029 alphaNTD homodimer interface [polypeptide binding]; other site 880447002030 alphaNTD - beta interaction site [polypeptide binding]; other site 880447002031 alphaNTD - beta' interaction site [polypeptide binding]; other site 880447002032 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 880447002033 30S ribosomal protein S11; Validated; Region: PRK05309 880447002034 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 880447002035 30S ribosomal protein S13; Region: bact_S13; TIGR03631 880447002036 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 880447002037 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 880447002038 rRNA binding site [nucleotide binding]; other site 880447002039 predicted 30S ribosome binding site; other site 880447002040 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 880447002041 active site 880447002042 adenylate kinase; Region: adk; TIGR01351 880447002043 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 880447002044 AMP-binding site [chemical binding]; other site 880447002045 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 880447002046 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 880447002047 SecY translocase; Region: SecY; pfam00344 880447002048 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 880447002049 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 880447002050 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 880447002051 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 880447002052 5S rRNA interface [nucleotide binding]; other site 880447002053 23S rRNA interface [nucleotide binding]; other site 880447002054 L5 interface [polypeptide binding]; other site 880447002055 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 880447002056 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880447002057 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880447002058 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 880447002059 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 880447002060 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 880447002061 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 880447002062 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 880447002063 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 880447002064 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 880447002065 RNA binding site [nucleotide binding]; other site 880447002066 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 880447002067 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 880447002068 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 880447002069 putative translocon interaction site; other site 880447002070 signal recognition particle (SRP54) interaction site; other site 880447002071 L23 interface [polypeptide binding]; other site 880447002072 trigger factor interaction site; other site 880447002073 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 880447002074 23S rRNA interface [nucleotide binding]; other site 880447002075 5S rRNA interface [nucleotide binding]; other site 880447002076 putative antibiotic binding site [chemical binding]; other site 880447002077 L25 interface [polypeptide binding]; other site 880447002078 L27 interface [polypeptide binding]; other site 880447002079 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 880447002080 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 880447002081 G-X-X-G motif; other site 880447002082 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 880447002083 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 880447002084 putative translocon binding site; other site 880447002085 protein-rRNA interface [nucleotide binding]; other site 880447002086 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 880447002087 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 880447002088 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 880447002089 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 880447002090 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 880447002091 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 880447002092 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 880447002093 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 880447002094 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 880447002095 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 880447002096 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 880447002097 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 880447002098 Ca binding site [ion binding]; other site 880447002099 active site 880447002100 catalytic site [active] 880447002101 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 880447002102 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447002103 active site turn [active] 880447002104 phosphorylation site [posttranslational modification] 880447002105 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447002106 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880447002107 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880447002108 DNA binding site [nucleotide binding] 880447002109 domain linker motif; other site 880447002110 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880447002111 potential frameshift: common BLAST hit: gi|83319591|ref|YP_424664.1| lipoprotein 880447002112 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002113 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002114 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880447002115 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 880447002116 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880447002117 homodimer interface [polypeptide binding]; other site 880447002118 NADP binding site [chemical binding]; other site 880447002119 substrate binding site [chemical binding]; other site 880447002120 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 880447002121 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 880447002122 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 880447002123 TrkA-N domain; Region: TrkA_N; pfam02254 880447002124 TrkA-C domain; Region: TrkA_C; pfam02080 880447002125 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 880447002126 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 880447002127 GatB domain; Region: GatB_Yqey; pfam02637 880447002128 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880447002129 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 880447002130 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; pfam02686 880447002131 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 880447002132 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 880447002133 nucleotide binding pocket [chemical binding]; other site 880447002134 K-X-D-G motif; other site 880447002135 catalytic site [active] 880447002136 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 880447002137 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 880447002138 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 880447002139 Dimer interface [polypeptide binding]; other site 880447002140 BRCT sequence motif; other site 880447002141 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880447002142 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 880447002143 RNA binding surface [nucleotide binding]; other site 880447002144 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880447002145 active site 880447002146 CAAX protease self-immunity; Region: Abi; pfam02517 880447002147 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 880447002148 dimerization domain swap beta strand [polypeptide binding]; other site 880447002149 regulatory protein interface [polypeptide binding]; other site 880447002150 active site 880447002151 regulatory phosphorylation site [posttranslational modification]; other site 880447002152 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 880447002153 Part of AAA domain; Region: AAA_19; pfam13245 880447002154 Family description; Region: UvrD_C_2; pfam13538 880447002155 RDD family; Region: RDD; pfam06271 880447002156 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 880447002157 active site 880447002158 potential frameshift: common BLAST hit: gi|83319595|ref|YP_424680.1| lipoprotein 880447002159 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002160 potential frameshift: common BLAST hit: gi|83319595|ref|YP_424680.1| lipoprotein 880447002161 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002162 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002163 aspartate kinase; Provisional; Region: PRK07431 880447002164 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 880447002165 SelR domain; Region: SelR; pfam01641 880447002166 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 880447002167 hypothetical protein; Provisional; Region: PRK06148 880447002168 Protein of unknown function DUF262; Region: DUF262; pfam03235 880447002169 Protein of unknown function DUF262; Region: DUF262; pfam03235 880447002170 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 880447002171 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 880447002172 dimer interface [polypeptide binding]; other site 880447002173 conserved gate region; other site 880447002174 putative PBP binding loops; other site 880447002175 ABC-ATPase subunit interface; other site 880447002176 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 880447002177 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447002178 Walker A/P-loop; other site 880447002179 ATP binding site [chemical binding]; other site 880447002180 Q-loop/lid; other site 880447002181 ABC transporter signature motif; other site 880447002182 Walker B; other site 880447002183 D-loop; other site 880447002184 H-loop/switch region; other site 880447002185 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 880447002186 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 880447002187 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 880447002188 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 880447002189 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 880447002190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880447002191 homodimer interface [polypeptide binding]; other site 880447002192 catalytic residue [active] 880447002193 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 880447002194 homotrimer interaction site [polypeptide binding]; other site 880447002195 putative active site [active] 880447002196 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002197 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447002198 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002199 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002200 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 880447002201 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 880447002202 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880447002203 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 880447002204 active site 880447002205 trimer interface [polypeptide binding]; other site 880447002206 allosteric site; other site 880447002207 active site lid [active] 880447002208 hexamer (dimer of trimers) interface [polypeptide binding]; other site 880447002209 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 880447002210 triosephosphate isomerase; Provisional; Region: PRK14565 880447002211 substrate binding site [chemical binding]; other site 880447002212 dimer interface [polypeptide binding]; other site 880447002213 catalytic triad [active] 880447002214 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 880447002215 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 880447002216 active site 880447002217 motif I; other site 880447002218 motif II; other site 880447002219 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447002220 phosphoglyceromutase; Provisional; Region: PRK05434 880447002221 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 880447002222 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 880447002223 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 880447002224 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 880447002225 intersubunit interface [polypeptide binding]; other site 880447002226 active site 880447002227 catalytic residue [active] 880447002228 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 880447002229 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 880447002230 active site 880447002231 substrate binding site [chemical binding]; other site 880447002232 metal binding site [ion binding]; metal-binding site 880447002233 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880447002234 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 880447002235 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880447002236 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 880447002237 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 880447002238 MgtE intracellular N domain; Region: MgtE_N; pfam03448 880447002239 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 880447002240 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 880447002241 S-adenosylmethionine binding site [chemical binding]; other site 880447002242 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002243 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880447002244 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880447002245 cofactor binding site; other site 880447002246 DNA binding site [nucleotide binding] 880447002247 substrate interaction site [chemical binding]; other site 880447002248 Fic family protein [Function unknown]; Region: COG3177 880447002249 Fic/DOC family; Region: Fic; pfam02661 880447002250 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002251 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002252 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002253 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 880447002254 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447002255 Walker A/P-loop; other site 880447002256 ATP binding site [chemical binding]; other site 880447002257 Q-loop/lid; other site 880447002258 ABC transporter signature motif; other site 880447002259 Walker B; other site 880447002260 D-loop; other site 880447002261 H-loop/switch region; other site 880447002262 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 880447002263 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 880447002264 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 880447002265 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 880447002266 active site 880447002267 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880447002268 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 880447002269 active site 880447002270 putative transposase OrfB; Reviewed; Region: PHA02517 880447002271 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002272 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 880447002273 excinuclease ABC subunit B; Provisional; Region: PRK05298 880447002274 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 880447002275 ATP binding site [chemical binding]; other site 880447002276 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 880447002277 nucleotide binding region [chemical binding]; other site 880447002278 ATP-binding site [chemical binding]; other site 880447002279 Ultra-violet resistance protein B; Region: UvrB; pfam12344 880447002280 UvrB/uvrC motif; Region: UVR; pfam02151 880447002281 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 880447002282 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880447002283 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880447002284 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 880447002285 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 880447002286 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 880447002287 HPr kinase/phosphorylase; Provisional; Region: PRK05428 880447002288 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 880447002289 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 880447002290 Hpr binding site; other site 880447002291 active site 880447002292 homohexamer subunit interaction site [polypeptide binding]; other site 880447002293 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 880447002294 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 880447002295 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880447002296 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880447002297 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 880447002298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 880447002299 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 880447002300 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002301 potential frameshift: common BLAST hit: gi|83319432|ref|YP_424732.1| PTS system, IIBC component, putative 880447002302 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447002303 PTS system, glucose-like IIB component; Region: EIIB_glc; TIGR00826 880447002304 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447002305 active site turn [active] 880447002306 phosphorylation site [posttranslational modification] 880447002307 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl17885 880447002308 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 880447002309 active site 880447002310 catalytic residues [active] 880447002311 potential frameshift: common BLAST hit: gi|83319785|ref|YP_424736.1| PTS system, IIBC component, putative 880447002312 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447002313 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 880447002314 PTS system, maltose and glucose-specific IIBC component; Region: PTS-IIBC-malX; TIGR02004 880447002315 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 880447002316 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 880447002317 active site turn [active] 880447002318 phosphorylation site [posttranslational modification] 880447002319 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 880447002320 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 880447002321 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 880447002322 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 880447002323 DNA topoisomerase I; Validated; Region: PRK05582 880447002324 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 880447002325 active site 880447002326 metal binding site [ion binding]; metal-binding site 880447002327 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 880447002328 domain I; other site 880447002329 DNA binding groove [nucleotide binding] 880447002330 phosphate binding site [ion binding]; other site 880447002331 domain II; other site 880447002332 domain III; other site 880447002333 nucleotide binding site [chemical binding]; other site 880447002334 catalytic site [active] 880447002335 domain IV; other site 880447002336 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 880447002337 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002338 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002339 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002340 DNA polymerase III PolC; Validated; Region: polC; PRK00448 880447002341 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002342 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 880447002343 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880447002344 Walker A/P-loop; other site 880447002345 ATP binding site [chemical binding]; other site 880447002346 Q-loop/lid; other site 880447002347 ABC transporter signature motif; other site 880447002348 Walker B; other site 880447002349 D-loop; other site 880447002350 H-loop/switch region; other site 880447002351 potential frameshift: common BLAST hit: gi|83319360|ref|YP_424746.1| ABC transporter, permease protein, putative 880447002352 potential frameshift: common BLAST hit: gi|83319360|ref|YP_424746.1| ABC transporter, permease protein, putative 880447002353 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002354 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002355 aromatic cluster surface protein; Region: aro_clust_Mycop; TIGR04313 880447002356 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 880447002357 Predicted membrane protein [Function unknown]; Region: COG1288 880447002358 Protein of unknown function DUF45; Region: DUF45; pfam01863 880447002359 GTP-binding protein YchF; Reviewed; Region: PRK09601 880447002360 YchF GTPase; Region: YchF; cd01900 880447002361 G1 box; other site 880447002362 GTP/Mg2+ binding site [chemical binding]; other site 880447002363 Switch I region; other site 880447002364 G2 box; other site 880447002365 Switch II region; other site 880447002366 G3 box; other site 880447002367 G4 box; other site 880447002368 G5 box; other site 880447002369 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 880447002370 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 880447002371 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 880447002372 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 880447002373 S-adenosylmethionine binding site [chemical binding]; other site 880447002374 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 880447002375 Amino acid permease; Region: AA_permease_2; pfam13520 880447002376 Amino acid permease; Region: AA_permease_2; pfam13520 880447002377 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 880447002378 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 880447002379 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880447002380 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880447002381 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 880447002382 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 880447002383 IHF dimer interface [polypeptide binding]; other site 880447002384 IHF - DNA interface [nucleotide binding]; other site 880447002385 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880447002386 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 880447002387 asparagine synthetase AsnA; Provisional; Region: PRK05425 880447002388 motif 1; other site 880447002389 dimer interface [polypeptide binding]; other site 880447002390 active site 880447002391 motif 2; other site 880447002392 motif 3; other site 880447002393 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 880447002394 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 880447002395 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 880447002396 trmE is a tRNA modification GTPase; Region: trmE; cd04164 880447002397 G1 box; other site 880447002398 GTP/Mg2+ binding site [chemical binding]; other site 880447002399 Switch I region; other site 880447002400 G2 box; other site 880447002401 Switch II region; other site 880447002402 G3 box; other site 880447002403 G4 box; other site 880447002404 G5 box; other site 880447002405 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 880447002406 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 880447002407 UGMP family protein; Validated; Region: PRK09604 880447002408 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 880447002409 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880447002410 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 880447002411 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 880447002412 active site 880447002413 motif I; other site 880447002414 motif II; other site 880447002415 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447002416 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 880447002417 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 880447002418 putative dimer interface [polypeptide binding]; other site 880447002419 putative anticodon binding site; other site 880447002420 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 880447002421 homodimer interface [polypeptide binding]; other site 880447002422 motif 1; other site 880447002423 motif 2; other site 880447002424 active site 880447002425 motif 3; other site 880447002426 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 880447002427 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 880447002428 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 880447002429 Walker A/P-loop; other site 880447002430 ATP binding site [chemical binding]; other site 880447002431 Q-loop/lid; other site 880447002432 ABC transporter signature motif; other site 880447002433 Walker B; other site 880447002434 D-loop; other site 880447002435 H-loop/switch region; other site 880447002436 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 880447002437 dimer interface [polypeptide binding]; other site 880447002438 conserved gate region; other site 880447002439 putative PBP binding loops; other site 880447002440 ABC-ATPase subunit interface; other site 880447002441 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 880447002442 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 880447002443 dimer interface [polypeptide binding]; other site 880447002444 conserved gate region; other site 880447002445 putative PBP binding loops; other site 880447002446 ABC-ATPase subunit interface; other site 880447002447 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 880447002448 potential frameshift: common BLAST hit: gi|83319950|ref|YP_424775.1| metallo-beta-lactamase superfamily protein, putative 880447002449 Competence protein; Region: Competence; cl00471 880447002450 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 880447002451 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 880447002452 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 880447002453 active site 880447002454 motif I; other site 880447002455 motif II; other site 880447002456 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447002457 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 880447002458 catalytic residues [active] 880447002459 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 880447002460 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 880447002461 dimer interface [polypeptide binding]; other site 880447002462 putative anticodon binding site; other site 880447002463 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 880447002464 motif 1; other site 880447002465 active site 880447002466 motif 2; other site 880447002467 motif 3; other site 880447002468 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 880447002469 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 880447002470 FMN binding site [chemical binding]; other site 880447002471 active site 880447002472 catalytic residues [active] 880447002473 substrate binding site [chemical binding]; other site 880447002474 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 880447002475 seryl-tRNA synthetase; Provisional; Region: PRK05431 880447002476 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 880447002477 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 880447002478 dimer interface [polypeptide binding]; other site 880447002479 active site 880447002480 motif 1; other site 880447002481 motif 2; other site 880447002482 motif 3; other site 880447002483 Predicted membrane protein [Function unknown]; Region: COG2364 880447002484 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 880447002485 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 880447002486 hexamer interface [polypeptide binding]; other site 880447002487 ligand binding site [chemical binding]; other site 880447002488 putative active site [active] 880447002489 NAD(P) binding site [chemical binding]; other site 880447002490 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 880447002491 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 880447002492 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880447002493 catalytic triad [active] 880447002494 Putative peptidase (DUF31); Region: DUF31; pfam01732 880447002495 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 880447002496 active site 880447002497 P-loop; other site 880447002498 phosphorylation site [posttranslational modification] 880447002499 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 880447002500 alpha-mannosidase; Provisional; Region: PRK09819 880447002501 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 880447002502 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 880447002503 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 880447002504 active site 880447002505 phosphorylation site [posttranslational modification] 880447002506 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880447002507 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880447002508 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 880447002509 beta-galactosidase; Region: BGL; TIGR03356 880447002510 Uncharacterized conserved protein [Function unknown]; Region: COG3589 880447002511 Bacterial protein of unknown function (DUF871); Region: DUF871; pfam05913 880447002512 Haemagglutinin; Region: Hemagglutinin; pfam00509 880447002513 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 880447002514 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880447002515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 880447002516 Helix-turn-helix domain; Region: HTH_28; pfam13518 880447002517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 880447002518 Helix-turn-helix domain; Region: HTH_28; pfam13518 880447002519 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 880447002520 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 880447002521 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 880447002522 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 880447002523 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 880447002524 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 880447002525 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 880447002526 putative substrate binding site [chemical binding]; other site 880447002527 putative ATP binding site [chemical binding]; other site 880447002528 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 880447002529 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 880447002530 active site 880447002531 phosphorylation site [posttranslational modification] 880447002532 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 880447002533 active site 880447002534 P-loop; other site 880447002535 phosphorylation site [posttranslational modification] 880447002536 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 880447002537 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 880447002538 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 880447002539 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 880447002540 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 880447002541 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880447002542 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 880447002543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880447002544 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 880447002545 Isochorismatase family; Region: Isochorismatase; pfam00857 880447002546 catalytic triad [active] 880447002547 conserved cis-peptide bond; other site 880447002548 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002549 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 880447002550 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 880447002551 Integrase core domain; Region: rve; pfam00665 880447002552 Integrase core domain; Region: rve_2; pfam13333 880447002553 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 880447002554 active site 880447002555 ATP binding site [chemical binding]; other site 880447002556 substrate binding site [chemical binding]; other site 880447002557 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 880447002558 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; cl17915 880447002559 active site 880447002560 motif I; other site 880447002561 motif II; other site 880447002562 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880447002563 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02201 880447002564 Ribonuclease P; Region: Ribonuclease_P; pfam00825 880447002565 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399