-- dump date 20140619_011741 -- class Genbank::misc_feature -- table misc_feature_note -- id note 261317000001 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 261317000002 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 261317000003 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 261317000004 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 261317000005 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 261317000006 ATP binding site [chemical binding]; other site 261317000007 Mg2+ binding site [ion binding]; other site 261317000008 G-X-G motif; other site 261317000009 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 261317000010 anchoring element; other site 261317000011 dimer interface [polypeptide binding]; other site 261317000012 ATP binding site [chemical binding]; other site 261317000013 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 261317000014 active site 261317000015 putative metal-binding site [ion binding]; other site 261317000016 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 261317000017 DNA polymerase III subunit beta; Validated; Region: PRK05643 261317000018 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 261317000019 putative DNA binding surface [nucleotide binding]; other site 261317000020 dimer interface [polypeptide binding]; other site 261317000021 beta-clamp/clamp loader binding surface; other site 261317000022 beta-clamp/translesion DNA polymerase binding surface; other site 261317000023 DnaA N-terminal domain; Region: DnaA_N; pfam11638 261317000024 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 261317000025 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 261317000026 Walker A motif; other site 261317000027 ATP binding site [chemical binding]; other site 261317000028 Walker B motif; other site 261317000029 arginine finger; other site 261317000030 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 261317000031 DnaA box-binding interface [nucleotide binding]; other site 261317000032 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 261317000033 Ribonuclease P; Region: Ribonuclease_P; cl00457 261317000034 membrane protein insertase; Provisional; Region: PRK01318 261317000035 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 261317000036 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 261317000037 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 261317000038 trmE is a tRNA modification GTPase; Region: trmE; cd04164 261317000039 G1 box; other site 261317000040 GTP/Mg2+ binding site [chemical binding]; other site 261317000041 Switch I region; other site 261317000042 G2 box; other site 261317000043 Switch II region; other site 261317000044 G3 box; other site 261317000045 G4 box; other site 261317000046 G5 box; other site 261317000047 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 261317000048 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 261317000049 oligomerisation interface [polypeptide binding]; other site 261317000050 mobile loop; other site 261317000051 roof hairpin; other site 261317000052 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 261317000053 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 261317000054 ring oligomerisation interface [polypeptide binding]; other site 261317000055 ATP/Mg binding site [chemical binding]; other site 261317000056 stacking interactions; other site 261317000057 hinge regions; other site 261317000058 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 261317000059 RNA binding site [nucleotide binding]; other site 261317000060 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 261317000061 RNA binding site [nucleotide binding]; other site 261317000062 DNA replication protein DnaC; Validated; Region: PRK07952 261317000063 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 261317000064 Walker A motif; other site 261317000065 ATP binding site [chemical binding]; other site 261317000066 Walker B motif; other site 261317000067 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 261317000068 S-adenosylmethionine binding site [chemical binding]; other site 261317000069 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 261317000070 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 261317000071 P loop; other site 261317000072 GTP binding site [chemical binding]; other site 261317000073 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 261317000074 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 261317000075 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 261317000076 DNA binding residues [nucleotide binding] 261317000077 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 261317000078 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 261317000079 THF binding site; other site 261317000080 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 261317000081 substrate binding site [chemical binding]; other site 261317000082 THF binding site; other site 261317000083 zinc-binding site [ion binding]; other site 261317000084 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 261317000085 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 261317000086 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 261317000087 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 261317000088 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 261317000089 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 261317000090 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 261317000091 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 261317000092 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 261317000093 DNA binding site [nucleotide binding] 261317000094 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 261317000095 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 261317000096 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 261317000097 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 261317000098 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 261317000099 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 261317000100 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 261317000101 RPB3 interaction site [polypeptide binding]; other site 261317000102 RPB1 interaction site [polypeptide binding]; other site 261317000103 RPB11 interaction site [polypeptide binding]; other site 261317000104 RPB10 interaction site [polypeptide binding]; other site 261317000105 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 261317000106 core dimer interface [polypeptide binding]; other site 261317000107 peripheral dimer interface [polypeptide binding]; other site 261317000108 L10 interface [polypeptide binding]; other site 261317000109 L11 interface [polypeptide binding]; other site 261317000110 putative EF-Tu interaction site [polypeptide binding]; other site 261317000111 putative EF-G interaction site [polypeptide binding]; other site 261317000112 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 261317000113 23S rRNA interface [nucleotide binding]; other site 261317000114 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 261317000115 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 261317000116 mRNA/rRNA interface [nucleotide binding]; other site 261317000117 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 261317000118 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 261317000119 23S rRNA interface [nucleotide binding]; other site 261317000120 L7/L12 interface [polypeptide binding]; other site 261317000121 putative thiostrepton binding site; other site 261317000122 L25 interface [polypeptide binding]; other site 261317000123 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 261317000124 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 261317000125 putative homodimer interface [polypeptide binding]; other site 261317000126 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 261317000127 heterodimer interface [polypeptide binding]; other site 261317000128 homodimer interface [polypeptide binding]; other site 261317000129 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 261317000130 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 261317000131 FAD binding site [chemical binding]; other site 261317000132 argininosuccinate synthase; Provisional; Region: PRK13820 261317000133 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 261317000134 ANP binding site [chemical binding]; other site 261317000135 Substrate Binding Site II [chemical binding]; other site 261317000136 Substrate Binding Site I [chemical binding]; other site 261317000137 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 261317000138 argininosuccinate lyase; Provisional; Region: PRK04833 261317000139 active sites [active] 261317000140 tetramer interface [polypeptide binding]; other site 261317000141 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 261317000142 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 261317000143 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 261317000144 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 261317000145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 261317000146 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 261317000147 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 261317000148 DNA binding residues [nucleotide binding] 261317000149 DNA primase; Validated; Region: dnaG; PRK05667 261317000150 CHC2 zinc finger; Region: zf-CHC2; cl17510 261317000151 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 261317000152 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 261317000153 active site 261317000154 metal binding site [ion binding]; metal-binding site 261317000155 interdomain interaction site; other site 261317000156 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 261317000157 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 261317000158 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 261317000159 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 261317000160 tRNA threonylcarbamoyl adenosine modification protein YgjD; Region: T6A_YgjD; TIGR03723 261317000161 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 261317000162 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13298 261317000163 active site 261317000164 NTP binding site [chemical binding]; other site 261317000165 metal binding triad [ion binding]; metal-binding site 261317000166 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 261317000167 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 261317000168 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 261317000169 nucleotide binding pocket [chemical binding]; other site 261317000170 K-X-D-G motif; other site 261317000171 catalytic site [active] 261317000172 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 261317000173 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 261317000174 Dimer interface [polypeptide binding]; other site 261317000175 BRCT sequence motif; other site 261317000176 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 261317000177 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317000178 active site 261317000179 HIGH motif; other site 261317000180 nucleotide binding site [chemical binding]; other site 261317000181 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 261317000182 active site 261317000183 KMSKS motif; other site 261317000184 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 261317000185 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 261317000186 Flagellar assembly protein FliH; Region: FliH; pfam02108 261317000187 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 261317000188 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 261317000189 Walker A motif; other site 261317000190 ATP binding site [chemical binding]; other site 261317000191 Walker B motif; other site 261317000192 NAD-specific glutamate dehydrogenase [Amino acid transport and metabolism]; Region: COG2902 261317000193 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 261317000194 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 261317000195 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 261317000196 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 261317000197 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 261317000198 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 261317000199 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 261317000200 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 261317000201 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 261317000202 dimer interface [polypeptide binding]; other site 261317000203 substrate binding site [chemical binding]; other site 261317000204 metal binding sites [ion binding]; metal-binding site 261317000205 peptidase PmbA; Provisional; Region: PRK11040 261317000206 YraL 261317000207 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 261317000208 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 261317000209 dimer interface [polypeptide binding]; other site 261317000210 active site 261317000211 transaldolase-like protein; Provisional; Region: PTZ00411 261317000212 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 261317000213 active site 261317000214 dimer interface [polypeptide binding]; other site 261317000215 catalytic residue [active] 261317000216 transketolase; Reviewed; Region: PRK12753 261317000217 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 261317000218 TPP-binding site [chemical binding]; other site 261317000219 dimer interface [polypeptide binding]; other site 261317000220 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 261317000221 PYR/PP interface [polypeptide binding]; other site 261317000222 dimer interface [polypeptide binding]; other site 261317000223 TPP binding site [chemical binding]; other site 261317000224 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 261317000225 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 261317000226 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 261317000227 metal binding site [ion binding]; metal-binding site 261317000228 dimer interface [polypeptide binding]; other site 261317000229 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 261317000230 dimer interface [polypeptide binding]; other site 261317000231 active site 261317000232 catalytic residue [active] 261317000233 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 261317000234 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 261317000235 Tetramer interface [polypeptide binding]; other site 261317000236 active site 261317000237 FMN-binding site [chemical binding]; other site 261317000238 hypothetical protein; Provisional; Region: PRK04946 261317000239 Smr domain; Region: Smr; pfam01713 261317000240 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 261317000241 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 261317000242 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 261317000243 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 261317000244 histidinol dehydrogenase; Region: hisD; TIGR00069 261317000245 NAD binding site [chemical binding]; other site 261317000246 dimerization interface [polypeptide binding]; other site 261317000247 product binding site; other site 261317000248 substrate binding site [chemical binding]; other site 261317000249 zinc binding site [ion binding]; other site 261317000250 catalytic residues [active] 261317000251 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 261317000252 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 261317000253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 261317000254 homodimer interface [polypeptide binding]; other site 261317000255 catalytic residue [active] 261317000256 histidinol-phosphatase; Region: hisB_Nterm; TIGR01261 261317000257 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 261317000258 active site 261317000259 motif I; other site 261317000260 motif II; other site 261317000261 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cl00341 261317000262 putative active site pocket [active] 261317000263 4-fold oligomerization interface [polypeptide binding]; other site 261317000264 metal binding residues [ion binding]; metal-binding site 261317000265 3-fold/trimer interface [polypeptide binding]; other site 261317000266 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 261317000267 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 261317000268 putative active site [active] 261317000269 oxyanion strand; other site 261317000270 catalytic triad [active] 261317000271 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 261317000272 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 261317000273 catalytic residues [active] 261317000274 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 261317000275 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 261317000276 substrate binding site [chemical binding]; other site 261317000277 glutamase interaction surface [polypeptide binding]; other site 261317000278 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 261317000279 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 261317000280 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 261317000281 metal binding site [ion binding]; metal-binding site 261317000282 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 261317000283 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 261317000284 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 261317000285 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317000286 tRNA synthetases class I (M); Region: tRNA-synt_1g; pfam09334 261317000287 active site 261317000288 nucleotide binding site [chemical binding]; other site 261317000289 HIGH motif; other site 261317000290 KMSKS motif; other site 261317000291 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 261317000292 tRNA binding surface [nucleotide binding]; other site 261317000293 anticodon binding site; other site 261317000294 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 261317000295 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 261317000296 Ligand Binding Site [chemical binding]; other site 261317000297 endonuclease III; Provisional; Region: PRK10702 261317000298 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 261317000299 minor groove reading motif; other site 261317000300 helix-hairpin-helix signature motif; other site 261317000301 substrate binding pocket [chemical binding]; other site 261317000302 active site 261317000303 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 261317000304 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 261317000305 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 261317000306 active site 261317000307 HIGH motif; other site 261317000308 dimer interface [polypeptide binding]; other site 261317000309 KMSKS motif; other site 261317000310 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 261317000311 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 261317000312 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 261317000313 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 261317000314 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 261317000315 active site 261317000316 dimer interface [polypeptide binding]; other site 261317000317 motif 1; other site 261317000318 motif 2; other site 261317000319 motif 3; other site 261317000320 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 261317000321 anticodon binding site; other site 261317000322 translation initiation factor IF-3; Region: infC; TIGR00168 261317000323 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 261317000324 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 261317000325 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 261317000326 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 261317000327 23S rRNA binding site [nucleotide binding]; other site 261317000328 L21 binding site [polypeptide binding]; other site 261317000329 L13 binding site [polypeptide binding]; other site 261317000330 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 261317000331 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 261317000332 dimer interface [polypeptide binding]; other site 261317000333 motif 1; other site 261317000334 active site 261317000335 motif 2; other site 261317000336 motif 3; other site 261317000337 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 261317000338 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 261317000339 putative tRNA-binding site [nucleotide binding]; other site 261317000340 B3/4 domain; Region: B3_4; pfam03483 261317000341 tRNA synthetase B5 domain; Region: B5; pfam03484 261317000342 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 261317000343 dimer interface [polypeptide binding]; other site 261317000344 motif 1; other site 261317000345 motif 3; other site 261317000346 motif 2; other site 261317000347 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 261317000348 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 261317000349 IHF dimer interface [polypeptide binding]; other site 261317000350 IHF - DNA interface [nucleotide binding]; other site 261317000351 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 261317000352 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 261317000353 motif 1; other site 261317000354 dimer interface [polypeptide binding]; other site 261317000355 active site 261317000356 motif 2; other site 261317000357 motif 3; other site 261317000358 endonuclease IV; Provisional; Region: PRK01060 261317000359 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 261317000360 AP (apurinic/apyrimidinic) site pocket; other site 261317000361 DNA interaction; other site 261317000362 Metal-binding active site; metal-binding site 261317000363 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 261317000364 5S rRNA interface [nucleotide binding]; other site 261317000365 CTC domain interface [polypeptide binding]; other site 261317000366 L16 interface [polypeptide binding]; other site 261317000367 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 261317000368 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 261317000369 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 261317000370 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 261317000371 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 261317000372 active site 261317000373 metal binding site [ion binding]; metal-binding site 261317000374 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 261317000375 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 261317000376 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 261317000377 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 261317000378 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 261317000379 ATP-grasp domain; Region: ATP-grasp_4; cl17255 261317000380 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 261317000381 substrate binding site [chemical binding]; other site 261317000382 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 261317000383 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 261317000384 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 261317000385 subunit interface [polypeptide binding]; other site 261317000386 dihydrodipicolinate reductase; Provisional; Region: PRK00048 261317000387 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 261317000388 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 261317000389 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 261317000390 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317000391 active site 261317000392 HIGH motif; other site 261317000393 nucleotide binding site [chemical binding]; other site 261317000394 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 261317000395 active site 261317000396 KMSKS motif; other site 261317000397 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 261317000398 tRNA binding surface [nucleotide binding]; other site 261317000399 anticodon binding site; other site 261317000400 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 261317000401 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 261317000402 chaperone protein DnaJ; Provisional; Region: PRK10767 261317000403 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 261317000404 HSP70 interaction site [polypeptide binding]; other site 261317000405 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 261317000406 substrate binding site [polypeptide binding]; other site 261317000407 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 261317000408 Zn binding sites [ion binding]; other site 261317000409 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 261317000410 dimer interface [polypeptide binding]; other site 261317000411 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 261317000412 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 261317000413 nucleotide binding site [chemical binding]; other site 261317000414 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 261317000415 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 261317000416 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 261317000417 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 261317000418 NADH dehydrogenase subunit D; Validated; Region: PRK06075 261317000419 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 261317000420 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 261317000421 putative dimer interface [polypeptide binding]; other site 261317000422 [2Fe-2S] cluster binding site [ion binding]; other site 261317000423 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 261317000424 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 261317000425 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 261317000426 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 261317000427 catalytic loop [active] 261317000428 iron binding site [ion binding]; other site 261317000429 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 261317000430 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 261317000431 [4Fe-4S] binding site [ion binding]; other site 261317000432 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 261317000433 molybdopterin cofactor binding site; other site 261317000434 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 261317000435 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 261317000436 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 261317000437 4Fe-4S binding domain; Region: Fer4; cl02805 261317000438 4Fe-4S binding domain; Region: Fer4; pfam00037 261317000439 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 261317000440 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 261317000441 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 261317000442 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 261317000443 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 261317000444 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 261317000445 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 261317000446 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 261317000447 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 261317000448 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 261317000449 active site 261317000450 peptide chain release factor 1; Validated; Region: prfA; PRK00591 261317000451 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; cl00315 261317000452 PCRF domain; Region: PCRF; pfam03462 261317000453 RF-1 domain; Region: RF-1; pfam00472 261317000454 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 261317000455 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 261317000456 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 261317000457 S-adenosylmethionine binding site [chemical binding]; other site 261317000458 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 261317000459 Tetratricopeptide repeat; Region: TPR_9; pfam13371 261317000460 propionate/acetate kinase; Provisional; Region: PRK12379 261317000461 Acetokinase family; Region: Acetate_kinase; cl17229 261317000462 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 261317000463 DNA gyrase subunit A; Validated; Region: PRK05560 261317000464 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 261317000465 CAP-like domain; other site 261317000466 active site 261317000467 primary dimer interface [polypeptide binding]; other site 261317000468 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 261317000469 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 261317000470 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 261317000471 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 261317000472 peroxidase; Provisional; Region: PRK15000 261317000473 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 261317000474 dimer interface [polypeptide binding]; other site 261317000475 decamer (pentamer of dimers) interface [polypeptide binding]; other site 261317000476 catalytic triad [active] 261317000477 peroxidatic and resolving cysteines [active] 261317000478 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 261317000479 ligand binding site [chemical binding]; other site 261317000480 active site 261317000481 UGI interface [polypeptide binding]; other site 261317000482 catalytic site [active] 261317000483 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 261317000484 putative GSH binding site [chemical binding]; other site 261317000485 catalytic residues [active] 261317000486 ribonuclease T; Provisional; Region: PRK05168 261317000487 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 261317000488 active site 261317000489 catalytic site [active] 261317000490 substrate binding site [chemical binding]; other site 261317000491 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 261317000492 putative active site [active] 261317000493 catalytic residue [active] 261317000494 GTP-binding protein YchF; Reviewed; Region: PRK09601 261317000495 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 261317000496 G1 box; other site 261317000497 GTP/Mg2+ binding site [chemical binding]; other site 261317000498 G2 box; other site 261317000499 Switch I region; other site 261317000500 G3 box; other site 261317000501 Switch II region; other site 261317000502 G4 box; other site 261317000503 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 261317000504 threonine synthase; Validated; Region: PRK09225 261317000505 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 261317000506 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 261317000507 catalytic residue [active] 261317000508 homoserine kinase; Provisional; Region: PRK01212 261317000509 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 261317000510 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 261317000511 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 261317000512 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 261317000513 nucleotide binding site [chemical binding]; other site 261317000514 substrate binding site [chemical binding]; other site 261317000515 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 261317000516 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 261317000517 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 261317000518 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 261317000519 PcnB 261317000520 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 261317000521 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 261317000522 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 261317000523 dimerization interface 3.5A [polypeptide binding]; other site 261317000524 active site 261317000525 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 261317000526 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 261317000527 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 261317000528 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 261317000529 dimer interface [polypeptide binding]; other site 261317000530 TPP-binding site [chemical binding]; other site 261317000531 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 261317000532 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 261317000533 E3 interaction surface; other site 261317000534 lipoyl attachment site [posttranslational modification]; other site 261317000535 e3 binding domain; Region: E3_binding; pfam02817 261317000536 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 261317000537 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 261317000538 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 261317000539 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 261317000540 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 261317000541 cell division protein FtsZ; Region: ftsZ; TIGR00065 261317000542 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 261317000543 nucleotide binding site [chemical binding]; other site 261317000544 SulA interaction site; other site 261317000545 Cell division protein FtsA; Region: FtsA; cl17206 261317000546 Cell division protein FtsA; Region: FtsA; pfam14450 261317000547 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 261317000548 MraW methylase family; Region: Methyltransf_5; cl17771 261317000549 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 261317000550 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 261317000551 putative valine binding site [chemical binding]; other site 261317000552 dimer interface [polypeptide binding]; other site 261317000553 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 261317000554 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 261317000555 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 261317000556 PYR/PP interface [polypeptide binding]; other site 261317000557 dimer interface [polypeptide binding]; other site 261317000558 TPP binding site [chemical binding]; other site 261317000559 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 261317000560 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 261317000561 TPP-binding site [chemical binding]; other site 261317000562 dimer interface [polypeptide binding]; other site 261317000563 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 261317000564 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 261317000565 trimer interface [polypeptide binding]; other site 261317000566 active site 261317000567 substrate binding site [chemical binding]; other site 261317000568 CoA binding site [chemical binding]; other site 261317000569 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 261317000570 active site 261317000571 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 261317000572 rRNA interaction site [nucleotide binding]; other site 261317000573 S8 interaction site; other site 261317000574 putative laminin-1 binding site; other site 261317000575 elongation factor Ts; Provisional; Region: tsf; PRK09377 261317000576 Elongation factor TS; Region: EF_TS; pfam00889 261317000577 Elongation factor TS; Region: EF_TS; pfam00889 261317000578 Ribosome recycling factor; Region: RRF; pfam01765 261317000579 hinge region; other site 261317000580 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 261317000581 Surface antigen; Region: Bac_surface_Ag; pfam01103 261317000582 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 261317000583 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 261317000584 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 261317000585 putative active site [active] 261317000586 putative PHP Thumb interface [polypeptide binding]; other site 261317000587 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 261317000588 motif 1; other site 261317000589 dimer interface [polypeptide binding]; other site 261317000590 active site 261317000591 motif 2; other site 261317000592 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 261317000593 active site 261317000594 motif 3; other site 261317000595 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 261317000596 anticodon binding site; other site 261317000597 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 261317000598 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 261317000599 FHIPEP family; Region: FHIPEP; pfam00771 261317000600 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 261317000601 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 261317000602 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 261317000603 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 261317000604 active site 261317000605 HIGH motif; other site 261317000606 KMSK motif region; other site 261317000607 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 261317000608 tRNA binding surface [nucleotide binding]; other site 261317000609 anticodon binding site; other site 261317000610 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 261317000611 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 261317000612 RNA/DNA hybrid binding site [nucleotide binding]; other site 261317000613 active site 261317000614 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 261317000615 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 261317000616 active site 261317000617 catalytic site [active] 261317000618 substrate binding site [chemical binding]; other site 261317000619 GrpE; Region: GrpE; pfam01025 261317000620 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 261317000621 dimer interface [polypeptide binding]; other site 261317000622 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 261317000623 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 261317000624 SmpB-tmRNA interface; other site 261317000625 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 261317000626 nucleoside/Zn binding site; other site 261317000627 dimer interface [polypeptide binding]; other site 261317000628 catalytic motif [active] 261317000629 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 261317000630 GTPase [General function prediction only]; Region: Era; COG1159 261317000631 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 261317000632 G1 box; other site 261317000633 GTP/Mg2+ binding site [chemical binding]; other site 261317000634 Switch I region; other site 261317000635 G2 box; other site 261317000636 Switch II region; other site 261317000637 G3 box; other site 261317000638 G4 box; other site 261317000639 G5 box; other site 261317000640 ribonuclease III; Reviewed; Region: rnc; PRK00102 261317000641 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 261317000642 dimerization interface [polypeptide binding]; other site 261317000643 active site 261317000644 metal binding site [ion binding]; metal-binding site 261317000645 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 261317000646 dsRNA binding site [nucleotide binding]; other site 261317000647 signal peptidase I; Provisional; Region: PRK10861 261317000648 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 261317000649 Catalytic site [active] 261317000650 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 261317000651 GTP-binding protein LepA; Provisional; Region: PRK05433 261317000652 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 261317000653 G1 box; other site 261317000654 putative GEF interaction site [polypeptide binding]; other site 261317000655 GTP/Mg2+ binding site [chemical binding]; other site 261317000656 Switch I region; other site 261317000657 G2 box; other site 261317000658 G3 box; other site 261317000659 Switch II region; other site 261317000660 G4 box; other site 261317000661 G5 box; other site 261317000662 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 261317000663 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 261317000664 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 261317000665 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 261317000666 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 261317000667 Ligand Binding Site [chemical binding]; other site 261317000668 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 261317000669 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 261317000670 NAD binding site [chemical binding]; other site 261317000671 homotetramer interface [polypeptide binding]; other site 261317000672 homodimer interface [polypeptide binding]; other site 261317000673 substrate binding site [chemical binding]; other site 261317000674 active site 261317000675 exoribonuclease II; Provisional; Region: PRK05054 261317000676 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 261317000677 RNB domain; Region: RNB; pfam00773 261317000678 MarC family integral membrane protein; Region: MarC; cl00919 261317000679 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 261317000680 lipoyl synthase; Provisional; Region: PRK05481 261317000681 protease 4; Provisional; Region: PRK10949 261317000682 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 261317000683 oligomer interface [polypeptide binding]; other site 261317000684 tandem repeat interface [polypeptide binding]; other site 261317000685 active site residues [active] 261317000686 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 261317000687 oligomer interface [polypeptide binding]; other site 261317000688 tandem repeat interface [polypeptide binding]; other site 261317000689 active site residues [active] 261317000690 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 261317000691 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 261317000692 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 261317000693 substrate binding site [chemical binding]; other site 261317000694 active site 261317000695 catalytic residues [active] 261317000696 heterodimer interface [polypeptide binding]; other site 261317000697 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 261317000698 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 261317000699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 261317000700 catalytic residue [active] 261317000701 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 261317000702 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 261317000703 active site 261317000704 ribulose/triose binding site [chemical binding]; other site 261317000705 phosphate binding site [ion binding]; other site 261317000706 substrate (anthranilate) binding pocket [chemical binding]; other site 261317000707 product (indole) binding pocket [chemical binding]; other site 261317000708 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 261317000709 active site 261317000710 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 261317000711 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 261317000712 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 261317000713 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 261317000714 EamA-like transporter family; Region: EamA; pfam00892 261317000715 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 261317000716 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 261317000717 active site 261317000718 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 261317000719 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 261317000720 active site 261317000721 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 261317000722 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 261317000723 histidyl-tRNA synthetase; Region: hisS; TIGR00442 261317000724 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 261317000725 dimer interface [polypeptide binding]; other site 261317000726 active site 261317000727 motif 2; other site 261317000728 motif 3; other site 261317000729 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 261317000730 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 261317000731 dimer interface [polypeptide binding]; other site 261317000732 active site 261317000733 glycine-pyridoxal phosphate binding site [chemical binding]; other site 261317000734 folate binding site [chemical binding]; other site 261317000735 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 261317000736 DEAD-like helicases superfamily; Region: DEXDc; smart00487 261317000737 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 261317000738 ATP binding site [chemical binding]; other site 261317000739 putative Mg++ binding site [ion binding]; other site 261317000740 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 261317000741 nucleotide binding region [chemical binding]; other site 261317000742 ATP-binding site [chemical binding]; other site 261317000743 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 261317000744 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 261317000745 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 261317000746 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 261317000747 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 261317000748 Uncharacterized conserved protein [Function unknown]; Region: COG0327 261317000749 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 261317000750 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 261317000751 TPP-binding site [chemical binding]; other site 261317000752 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 261317000753 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 261317000754 E3 interaction surface; other site 261317000755 lipoyl attachment site [posttranslational modification]; other site 261317000756 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 261317000757 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 261317000758 catalytic core [active] 261317000759 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 261317000760 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 261317000761 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 261317000762 active site 261317000763 ADP/pyrophosphate binding site [chemical binding]; other site 261317000764 dimerization interface [polypeptide binding]; other site 261317000765 allosteric effector site; other site 261317000766 fructose-1,6-bisphosphate binding site; other site 261317000767 triosephosphate isomerase; Provisional; Region: PRK14567 261317000768 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 261317000769 substrate binding site [chemical binding]; other site 261317000770 dimer interface [polypeptide binding]; other site 261317000771 catalytic triad [active] 261317000772 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 261317000773 IHF dimer interface [polypeptide binding]; other site 261317000774 IHF - DNA interface [nucleotide binding]; other site 261317000775 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 261317000776 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 261317000777 RNA binding site [nucleotide binding]; other site 261317000778 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 261317000779 RNA binding site [nucleotide binding]; other site 261317000780 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 261317000781 RNA binding site [nucleotide binding]; other site 261317000782 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 261317000783 RNA binding site [nucleotide binding]; other site 261317000784 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 261317000785 RNA binding site [nucleotide binding]; other site 261317000786 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 261317000787 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 261317000788 hinge; other site 261317000789 active site 261317000790 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 261317000791 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 261317000792 catalytic residue [active] 261317000793 seryl-tRNA synthetase; Provisional; Region: PRK05431 261317000794 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 261317000795 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 261317000796 dimer interface [polypeptide binding]; other site 261317000797 active site 261317000798 motif 1; other site 261317000799 motif 2; other site 261317000800 motif 3; other site 261317000801 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 261317000802 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 261317000803 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 261317000804 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 261317000805 rRNA binding site [nucleotide binding]; other site 261317000806 predicted 30S ribosome binding site; other site 261317000807 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 261317000808 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 261317000809 dimer interface [polypeptide binding]; other site 261317000810 anticodon binding site; other site 261317000811 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 261317000812 motif 1; other site 261317000813 dimer interface [polypeptide binding]; other site 261317000814 active site 261317000815 motif 2; other site 261317000816 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 261317000817 active site 261317000818 motif 3; other site 261317000819 Transcriptional regulator; Region: Transcrip_reg; cl00361 261317000820 pyruvate kinase; Provisional; Region: PRK05826 261317000821 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 261317000822 domain interfaces; other site 261317000823 active site 261317000824 Peptidase family M48; Region: Peptidase_M48; cl12018 261317000825 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 261317000826 Glycoprotease family; Region: Peptidase_M22; pfam00814 261317000827 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 261317000828 cell division inhibitor MinD; Provisional; Region: PRK10818 261317000829 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 261317000830 Switch I; other site 261317000831 Switch II; other site 261317000832 septum formation inhibitor; Reviewed; Region: minC; PRK03511 261317000833 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 261317000834 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 261317000835 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 261317000836 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 261317000837 S-adenosylmethionine binding site [chemical binding]; other site 261317000838 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 261317000839 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 261317000840 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 261317000841 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 261317000842 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 261317000843 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgC; COG1558 261317000844 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12641 261317000845 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 261317000846 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 261317000847 Flagellar L-ring protein; Region: FlgH; cl17277 261317000848 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 261317000849 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 261317000850 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 261317000851 RNA binding surface [nucleotide binding]; other site 261317000852 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 261317000853 active site 261317000854 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 261317000855 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 261317000856 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 261317000857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 261317000858 NAD(P) binding site [chemical binding]; other site 261317000859 active site 261317000860 acyl carrier protein; Provisional; Region: acpP; PRK00982 261317000861 DNA polymerase III subunit delta'; Validated; Region: PRK07993 261317000862 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 261317000863 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 261317000864 active site 261317000865 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 261317000866 nucleotide binding site/active site [active] 261317000867 HIT family signature motif; other site 261317000868 catalytic residue [active] 261317000869 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 261317000870 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 261317000871 putative dimer interface [polypeptide binding]; other site 261317000872 putative anticodon binding site; other site 261317000873 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 261317000874 motif 1; other site 261317000875 dimer interface [polypeptide binding]; other site 261317000876 active site 261317000877 motif 2; other site 261317000878 motif 3; other site 261317000879 Uup 261317000880 hypothetical protein; Validated; Region: PRK01415 261317000881 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; cl00125 261317000882 active site residue [active] 261317000883 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 261317000884 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317000885 active site 261317000886 HIGH motif; other site 261317000887 nucleotide binding site [chemical binding]; other site 261317000888 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 261317000889 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317000890 active site 261317000891 KMSKS motif; other site 261317000892 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 261317000893 tRNA binding surface [nucleotide binding]; other site 261317000894 anticodon binding site; other site 261317000895 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 261317000896 multifunctional aminopeptidase A; Provisional; Region: PRK00913 261317000897 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 261317000898 interface (dimer of trimers) [polypeptide binding]; other site 261317000899 Substrate-binding/catalytic site; other site 261317000900 Zn-binding sites [ion binding]; other site 261317000901 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 261317000902 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 261317000903 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 261317000904 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 261317000905 homotrimer interaction site [polypeptide binding]; other site 261317000906 putative active site [active] 261317000907 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 261317000908 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 261317000909 ATP binding site [chemical binding]; other site 261317000910 Mg++ binding site [ion binding]; other site 261317000911 motif III; other site 261317000912 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 261317000913 nucleotide binding region [chemical binding]; other site 261317000914 ATP-binding site [chemical binding]; other site 261317000915 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 261317000916 putative RNA binding site [nucleotide binding]; other site 261317000917 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 261317000918 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 261317000919 RNase E interface [polypeptide binding]; other site 261317000920 trimer interface [polypeptide binding]; other site 261317000921 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 261317000922 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 261317000923 RNase E interface [polypeptide binding]; other site 261317000924 trimer interface [polypeptide binding]; other site 261317000925 active site 261317000926 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 261317000927 putative nucleic acid binding region [nucleotide binding]; other site 261317000928 G-X-X-G motif; other site 261317000929 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 261317000930 RNA binding site [nucleotide binding]; other site 261317000931 domain interface; other site 261317000932 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 261317000933 16S/18S rRNA binding site [nucleotide binding]; other site 261317000934 S13e-L30e interaction site [polypeptide binding]; other site 261317000935 25S rRNA binding site [nucleotide binding]; other site 261317000936 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 261317000937 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 261317000938 RNA binding site [nucleotide binding]; other site 261317000939 active site 261317000940 Ribosome-binding factor A; Region: RBFA; pfam02033 261317000941 translation initiation factor IF-2; Region: IF-2; TIGR00487 261317000942 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 261317000943 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 261317000944 G1 box; other site 261317000945 putative GEF interaction site [polypeptide binding]; other site 261317000946 GTP/Mg2+ binding site [chemical binding]; other site 261317000947 Switch I region; other site 261317000948 G2 box; other site 261317000949 G3 box; other site 261317000950 Switch II region; other site 261317000951 G4 box; other site 261317000952 G5 box; other site 261317000953 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 261317000954 Translation-initiation factor 2; Region: IF-2; pfam11987 261317000955 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 261317000956 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 261317000957 NusA N-terminal domain; Region: NusA_N; pfam08529 261317000958 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 261317000959 RNA binding site [nucleotide binding]; other site 261317000960 homodimer interface [polypeptide binding]; other site 261317000961 NusA-like KH domain; Region: KH_5; pfam13184 261317000962 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 261317000963 G-X-X-G motif; other site 261317000964 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 261317000965 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 261317000966 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 261317000967 Walker A motif; other site 261317000968 ATP binding site [chemical binding]; other site 261317000969 Walker B motif; other site 261317000970 arginine finger; other site 261317000971 Peptidase family M41; Region: Peptidase_M41; pfam01434 261317000972 FtsJ-like methyltransferase; Region: FtsJ; cl17430 261317000973 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 261317000974 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 261317000975 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 261317000976 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 261317000977 BolA-like protein; Region: BolA; cl00386 261317000978 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; pfam00829 261317000979 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 261317000980 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 261317000981 GTP1/OBG; Region: GTP1_OBG; pfam01018 261317000982 Obg GTPase; Region: Obg; cd01898 261317000983 G1 box; other site 261317000984 GTP/Mg2+ binding site [chemical binding]; other site 261317000985 Switch I region; other site 261317000986 G2 box; other site 261317000987 G3 box; other site 261317000988 Switch II region; other site 261317000989 G4 box; other site 261317000990 G5 box; other site 261317000991 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 261317000992 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 261317000993 23S rRNA interface [nucleotide binding]; other site 261317000994 L3 interface [polypeptide binding]; other site 261317000995 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 261317000996 Chorismate mutase type II; Region: CM_2; smart00830 261317000997 Prephenate dehydratase; Region: PDT; pfam00800 261317000998 signal recognition particle protein; Provisional; Region: PRK10867 261317000999 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 261317001000 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 261317001001 P loop; other site 261317001002 GTP binding site [chemical binding]; other site 261317001003 Signal peptide binding domain; Region: SRP_SPB; pfam02978 261317001004 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 261317001005 RimM N-terminal domain; Region: RimM; pfam01782 261317001006 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 261317001007 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 261317001008 protease TldD; Provisional; Region: tldD; PRK10735 261317001009 Dehydroquinase class II; Region: DHquinase_II; pfam01220 261317001010 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 261317001011 active site 261317001012 trimer interface [polypeptide binding]; other site 261317001013 dimer interface [polypeptide binding]; other site 261317001014 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 261317001015 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 261317001016 RNA binding surface [nucleotide binding]; other site 261317001017 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 261317001018 active site 261317001019 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 261317001020 tRNA synthetases class II (A); Region: tRNA-synt_2c; pfam01411 261317001021 motif 1; other site 261317001022 active site 261317001023 motif 2; other site 261317001024 motif 3; other site 261317001025 alanine-tRNA ligase; Region: PLN02961 261317001026 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 261317001027 carbon storage regulator; Provisional; Region: PRK01712 261317001028 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 261317001029 Cell division protein ZapA; Region: ZapA; cl01146 261317001030 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 261317001031 tetramer (dimer of dimers) interface [polypeptide binding]; other site 261317001032 active site 261317001033 dimer interface [polypeptide binding]; other site 261317001034 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 261317001035 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317001036 active site 261317001037 HIGH motif; other site 261317001038 nucleotide binding site [chemical binding]; other site 261317001039 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317001040 active site 261317001041 KMSKS motif; other site 261317001042 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 261317001043 enolase; Provisional; Region: eno; PRK00077 261317001044 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 261317001045 dimer interface [polypeptide binding]; other site 261317001046 metal binding site [ion binding]; metal-binding site 261317001047 substrate binding pocket [chemical binding]; other site 261317001048 DNA polymerase I; Provisional; Region: PRK05755 261317001049 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 261317001050 active site 261317001051 metal binding site 1 [ion binding]; metal-binding site 261317001052 putative 5' ssDNA interaction site; other site 261317001053 metal binding site 3; metal-binding site 261317001054 metal binding site 2 [ion binding]; metal-binding site 261317001055 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 261317001056 putative DNA binding site [nucleotide binding]; other site 261317001057 putative metal binding site [ion binding]; other site 261317001058 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 261317001059 active site 261317001060 substrate binding site [chemical binding]; other site 261317001061 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 261317001062 active site 261317001063 DNA binding site [nucleotide binding] 261317001064 catalytic site [active] 261317001065 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 261317001066 G1 box; other site 261317001067 GTP/Mg2+ binding site [chemical binding]; other site 261317001068 Switch I region; other site 261317001069 G2 box; other site 261317001070 G3 box; other site 261317001071 Switch II region; other site 261317001072 G4 box; other site 261317001073 G5 box; other site 261317001074 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 261317001075 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 261317001076 G1 box; other site 261317001077 putative GEF interaction site [polypeptide binding]; other site 261317001078 GTP/Mg2+ binding site [chemical binding]; other site 261317001079 Switch I region; other site 261317001080 G2 box; other site 261317001081 G3 box; other site 261317001082 Switch II region; other site 261317001083 G4 box; other site 261317001084 G5 box; other site 261317001085 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 261317001086 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 261317001087 putative global regulator; Reviewed; Region: PRK09559 261317001088 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 261317001089 This domain is found in peptide chain release factors; Region: PCRF; smart00937 261317001090 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 261317001091 RF-1 domain; Region: RF-1; pfam00472 261317001092 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 261317001093 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 261317001094 dimer interface [polypeptide binding]; other site 261317001095 putative anticodon binding site; other site 261317001096 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 261317001097 motif 1; other site 261317001098 dimer interface [polypeptide binding]; other site 261317001099 active site 261317001100 motif 2; other site 261317001101 motif 3; other site 261317001102 diaminopimelate decarboxylase; Provisional; Region: PRK11165 261317001103 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 261317001104 active site 261317001105 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 261317001106 substrate binding site [chemical binding]; other site 261317001107 catalytic residues [active] 261317001108 dimer interface [polypeptide binding]; other site 261317001109 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 261317001110 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 261317001111 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 261317001112 FeS/SAM binding site; other site 261317001113 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 261317001114 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 261317001115 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 261317001116 HIGH motif; other site 261317001117 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 261317001118 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317001119 active site 261317001120 KMSKS motif; other site 261317001121 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 261317001122 tRNA binding surface [nucleotide binding]; other site 261317001123 DNA polymerase III, delta subunit 261317001124 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 261317001125 CPxP motif; other site 261317001126 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 261317001127 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 261317001128 MarC family integral membrane protein; Region: MarC; cl00919 261317001129 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 261317001130 Phosphoglycerate kinase; Region: PGK; pfam00162 261317001131 substrate binding site [chemical binding]; other site 261317001132 hinge regions; other site 261317001133 ADP binding site [chemical binding]; other site 261317001134 catalytic site [active] 261317001135 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 261317001136 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 261317001137 active site 261317001138 intersubunit interface [polypeptide binding]; other site 261317001139 zinc binding site [ion binding]; other site 261317001140 Na+ binding site [ion binding]; other site 261317001141 Conserved TM helix; Region: TM_helix; pfam05552 261317001142 Mechanosensitive ion channel; Region: MS_channel; pfam00924 261317001143 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 261317001144 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 261317001145 RecB 261317001146 RecD 261317001147 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 261317001148 putative RNA binding site [nucleotide binding]; other site 261317001149 DsrC like protein; Region: DsrC; cl01101 261317001150 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 261317001151 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 261317001152 Subunit I/III interface [polypeptide binding]; other site 261317001153 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 261317001154 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 261317001155 D-pathway; other site 261317001156 Putative ubiquinol binding site [chemical binding]; other site 261317001157 Low-spin heme (heme b) binding site [chemical binding]; other site 261317001158 Putative water exit pathway; other site 261317001159 Binuclear center (heme o3/CuB) [ion binding]; other site 261317001160 K-pathway; other site 261317001161 Putative proton exit pathway; other site 261317001162 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 261317001163 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 261317001164 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 261317001165 BolA-like protein; Region: BolA; pfam01722 261317001166 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 261317001167 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 261317001168 oligomer interface [polypeptide binding]; other site 261317001169 active site residues [active] 261317001170 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 261317001171 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 261317001172 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 261317001173 Walker A motif; other site 261317001174 ATP binding site [chemical binding]; other site 261317001175 Walker B motif; other site 261317001176 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 261317001177 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 261317001178 Found in ATP-dependent protease La (LON); Region: LON; smart00464 261317001179 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 261317001180 Walker A motif; other site 261317001181 ATP binding site [chemical binding]; other site 261317001182 Walker B motif; other site 261317001183 arginine finger; other site 261317001184 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 261317001185 PpiD 261317001186 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 261317001187 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 261317001188 Walker A motif; other site 261317001189 ATP binding site [chemical binding]; other site 261317001190 Walker B motif; other site 261317001191 arginine finger; other site 261317001192 hypothetical protein; Validated; Region: PRK00153 261317001193 heat shock protein 90; Provisional; Region: PRK05218 261317001194 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 261317001195 ATP binding site [chemical binding]; other site 261317001196 Mg2+ binding site [ion binding]; other site 261317001197 G-X-G motif; other site 261317001198 adenylate kinase; Reviewed; Region: adk; PRK00279 261317001199 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 261317001200 AMP-binding site [chemical binding]; other site 261317001201 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 261317001202 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 261317001203 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 261317001204 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 261317001205 homodimer interface [polypeptide binding]; other site 261317001206 NADP binding site [chemical binding]; other site 261317001207 substrate binding site [chemical binding]; other site 261317001208 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 261317001209 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317001210 active site 261317001211 HIGH motif; other site 261317001212 nucleotide binding site [chemical binding]; other site 261317001213 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 261317001214 active site 261317001215 KMSKS motif; other site 261317001216 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 261317001217 tRNA binding surface [nucleotide binding]; other site 261317001218 anticodon binding site; other site 261317001219 hypothetical protein; Provisional; Region: PRK04998 261317001220 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 261317001221 DNA-binding site [nucleotide binding]; DNA binding site 261317001222 RNA-binding motif; other site 261317001223 AroE 261317001224 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cl00234 261317001225 active site 261317001226 catalytic residues [active] 261317001227 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 261317001228 active site 261317001229 cosubstrate binding site; other site 261317001230 catalytic site [active] 261317001231 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 261317001232 substrate binding site [chemical binding]; other site 261317001233 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 261317001234 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 261317001235 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 261317001236 alphaNTD homodimer interface [polypeptide binding]; other site 261317001237 alphaNTD - beta interaction site [polypeptide binding]; other site 261317001238 alphaNTD - beta' interaction site [polypeptide binding]; other site 261317001239 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 261317001240 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 261317001241 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 261317001242 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 261317001243 RNA binding surface [nucleotide binding]; other site 261317001244 30S ribosomal protein S11; Validated; Region: PRK05309 261317001245 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 261317001246 30S ribosomal protein S13; Region: bact_S13; TIGR03631 261317001247 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 261317001248 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 261317001249 SecY translocase; Region: SecY; pfam00344 261317001250 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 261317001251 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 261317001252 23S rRNA binding site [nucleotide binding]; other site 261317001253 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 261317001254 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 261317001255 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 261317001256 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 261317001257 5S rRNA interface [nucleotide binding]; other site 261317001258 L27 interface [polypeptide binding]; other site 261317001259 23S rRNA interface [nucleotide binding]; other site 261317001260 L5 interface [polypeptide binding]; other site 261317001261 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 261317001262 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 261317001263 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 261317001264 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 261317001265 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 261317001266 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 261317001267 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 261317001268 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 261317001269 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 261317001270 RNA binding site [nucleotide binding]; other site 261317001271 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 261317001272 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 261317001273 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; cl09943 261317001274 trigger factor interaction site; other site 261317001275 23S rRNA interface [nucleotide binding]; other site 261317001276 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 261317001277 23S rRNA interface [nucleotide binding]; other site 261317001278 5S rRNA interface [nucleotide binding]; other site 261317001279 putative antibiotic binding site [chemical binding]; other site 261317001280 L25 interface [polypeptide binding]; other site 261317001281 L27 interface [polypeptide binding]; other site 261317001282 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 261317001283 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 261317001284 G-X-X-G motif; other site 261317001285 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 261317001286 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 261317001287 putative translocon binding site; other site 261317001288 protein-rRNA interface [nucleotide binding]; other site 261317001289 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 261317001290 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 261317001291 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 261317001292 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 261317001293 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 261317001294 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 261317001295 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 261317001296 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 261317001297 elongation factor Tu; Reviewed; Region: PRK00049 261317001298 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 261317001299 G1 box; other site 261317001300 GEF interaction site [polypeptide binding]; other site 261317001301 GTP/Mg2+ binding site [chemical binding]; other site 261317001302 Switch I region; other site 261317001303 G2 box; other site 261317001304 G3 box; other site 261317001305 Switch II region; other site 261317001306 G4 box; other site 261317001307 G5 box; other site 261317001308 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 261317001309 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 261317001310 Antibiotic Binding Site [chemical binding]; other site 261317001311 elongation factor G; Reviewed; Region: PRK00007 261317001312 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 261317001313 G1 box; other site 261317001314 putative GEF interaction site [polypeptide binding]; other site 261317001315 GTP/Mg2+ binding site [chemical binding]; other site 261317001316 Switch I region; other site 261317001317 G2 box; other site 261317001318 G3 box; other site 261317001319 Switch II region; other site 261317001320 G4 box; other site 261317001321 G5 box; other site 261317001322 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 261317001323 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 261317001324 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 261317001325 30S ribosomal protein S7; Validated; Region: PRK05302 261317001326 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 261317001327 S17 interaction site [polypeptide binding]; other site 261317001328 S8 interaction site; other site 261317001329 16S rRNA interaction site [nucleotide binding]; other site 261317001330 streptomycin interaction site [chemical binding]; other site 261317001331 23S rRNA interaction site [nucleotide binding]; other site 261317001332 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 261317001333 DsrH like protein; Region: DsrH; cl17347 261317001334 sulfur relay protein TusC; Validated; Region: PRK00211 261317001335 DsrE/DsrF-like family; Region: DrsE; cl00672 261317001336 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 261317001337 active site 261317001338 dimer interface [polypeptide binding]; other site 261317001339 KMSKS motif; other site 261317001340 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 261317001341 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 261317001342 substrate binding site [chemical binding]; other site 261317001343 hexamer interface [polypeptide binding]; other site 261317001344 metal binding site [ion binding]; metal-binding site 261317001345 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 261317001346 active site 261317001347 dimer interface [polypeptide binding]; other site 261317001348 metal binding site [ion binding]; metal-binding site 261317001349 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 261317001350 shikimate kinase; Reviewed; Region: aroK; PRK00131 261317001351 ADP binding site [chemical binding]; other site 261317001352 magnesium binding site [ion binding]; other site 261317001353 putative shikimate binding site; other site 261317001354 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 261317001355 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 261317001356 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 261317001357 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 261317001358 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 261317001359 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 261317001360 dimer interface [polypeptide binding]; other site 261317001361 ssDNA binding site [nucleotide binding]; other site 261317001362 tetramer (dimer of dimers) interface [polypeptide binding]; other site 261317001363 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 261317001364 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 261317001365 FMN binding site [chemical binding]; other site 261317001366 active site 261317001367 catalytic residues [active] 261317001368 substrate binding site [chemical binding]; other site 261317001369 replicative DNA helicase; Provisional; Region: PRK08006 261317001370 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 261317001371 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 261317001372 Walker A motif; other site 261317001373 ATP binding site [chemical binding]; other site 261317001374 Walker B motif; other site 261317001375 DNA binding loops [nucleotide binding] 261317001376 Putative methyltransferase; Region: Methyltransf_4; cl17290 261317001377 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 261317001378 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 261317001379 minor groove reading motif; other site 261317001380 helix-hairpin-helix signature motif; other site 261317001381 substrate binding pocket [chemical binding]; other site 261317001382 active site 261317001383 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 261317001384 SbcB 261317001385 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 261317001386 trimer interface [polypeptide binding]; other site 261317001387 active site 261317001388 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 261317001389 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 261317001390 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 261317001391 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 261317001392 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 261317001393 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 261317001394 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 261317001395 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 261317001396 putative active site [active] 261317001397 putative substrate binding site [chemical binding]; other site 261317001398 dimer interface [polypeptide binding]; other site 261317001399 catalytic site [active] 261317001400 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 261317001401 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 261317001402 active site 261317001403 HslU subunit interaction site [polypeptide binding]; other site 261317001404 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 261317001405 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 261317001406 Walker A motif; other site 261317001407 ATP binding site [chemical binding]; other site 261317001408 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 261317001409 Walker B motif; other site 261317001410 arginine finger; other site 261317001411 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 261317001412 ferredoxin-NADP reductase; Provisional; Region: PRK10926 261317001413 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 261317001414 FAD binding pocket [chemical binding]; other site 261317001415 FAD binding motif [chemical binding]; other site 261317001416 phosphate binding motif [ion binding]; other site 261317001417 beta-alpha-beta structure motif; other site 261317001418 NAD binding pocket [chemical binding]; other site 261317001419 hypothetical protein 261317001420 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 261317001421 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 261317001422 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 261317001423 transcription termination factor Rho; Provisional; Region: rho; PRK09376 261317001424 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 261317001425 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 261317001426 RNA binding site [nucleotide binding]; other site 261317001427 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 261317001428 multimer interface [polypeptide binding]; other site 261317001429 Walker A motif; other site 261317001430 ATP binding site [chemical binding]; other site 261317001431 Walker B motif; other site 261317001432 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 261317001433 catalytic residues [active] 261317001434 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 261317001435 Family description; Region: UvrD_C_2; pfam13538 261317001436 ketol-acid reductoisomerase; Validated; Region: PRK05225 261317001437 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 261317001438 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 261317001439 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 261317001440 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 261317001441 cysteine desulfurase; Provisional; Region: PRK14012 261317001442 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 261317001443 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 261317001444 catalytic residue [active] 261317001445 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 261317001446 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 261317001447 trimerization site [polypeptide binding]; other site 261317001448 active site 261317001449 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 261317001450 HSP70 interaction site [polypeptide binding]; other site 261317001451 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 261317001452 rod-share determining protein MreBH; Provisional; Region: PRK13929 261317001453 putative NEF/HSP70 interaction site [polypeptide binding]; other site 261317001454 nucleotide binding site [chemical binding]; other site 261317001455 SBD interface [polypeptide binding]; other site 261317001456 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 261317001457 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 261317001458 catalytic loop [active] 261317001459 iron binding site [ion binding]; other site 261317001460 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 261317001461 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 261317001462 G1 box; other site 261317001463 GTP/Mg2+ binding site [chemical binding]; other site 261317001464 G2 box; other site 261317001465 Switch I region; other site 261317001466 G3 box; other site 261317001467 Switch II region; other site 261317001468 G4 box; other site 261317001469 G5 box; other site 261317001470 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 261317001471 G1 box; other site 261317001472 GTP/Mg2+ binding site [chemical binding]; other site 261317001473 G2 box; other site 261317001474 Switch I region; other site 261317001475 G3 box; other site 261317001476 Switch II region; other site 261317001477 G4 box; other site 261317001478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976