| Definition | Shigella flexneri 2a str. 2457T, complete genome. |
|---|---|
| Accession | NC_004741 |
| Length | 4,599,354 |
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The map label for this gene is cpdB
Identifier: 30065494
GI number: 30065494
Start: 4443609
End: 4445552
Strand: Direct
Name: cpdB
Synonym: S4538
Alternate gene names: 30065494
Gene position: 4443609-4445552 (Clockwise)
Preceding gene: 30065492
Following gene: 30065496
Centisome position: 96.61
GC content: 49.54
Gene sequence:
>1944_bases ATGATTAAGTTTAGCGCAACGCTCCTGGCCACGCTGATTGCCGCCAGTGTGAATGCAGCGACGGTCGATCTGCGTATCAT GGAAACCACTGATCTGCATAGCAACATGATGGATTTCGATTATTACAAAGACACCGCCACGGAAAAATTCGGACTGGTAC GTACGGCAAGCCTGATTAACGATGCCCGCAATGAAGTGAAAAACAGCGTACTGGTCGATAACGGCGATTTGATTCAGGGG AGTCCGCTGGCCGATTACATGTCGGCGAAAGGATTAAAAGCAGGTGATGTTCATCCGGTTTATAAGGCGCTGAATACGCT GGATTATACGGTCGGTACACTCGGCAATCATGAATTTAACTACGGTCTGGATTACCTGAAAAATGCGCTGGCGGGAGCGA AATTCCCTTATGTAAATGCCAACGTCATTGACGCCAGAACCAAACAGCCAATGTTTACACCGTATTTAATTAAAGATACC GAAGTGGTCGATAAAGACGGAAAAAAACAGACGCTGAAGATTGGCTATATTGGCGTCGTGCCGCCGCAAATCATGGGCTG GGATAAAGCTAATTTATCCGGAAAAGTGACGGTGAATGATATTACCGAAACCGTGCGCAAATACGTGCCTGAAATGCGCG AGAAAGGTGCCGATGTCATTGTCGTTCTGGCGCATTCCGGGCTGTCTGCCGATCCGTATAAAGTAATGGCGGAAAACTCA GTTTATTACCTCAGTGAAATTCCGGGCGTTAACGCCATTATGTTTGGCCATGCTCACGCCGTTTTCCCGGGTAAAGATTT TGCTGATATCGAAGGGGCTGATATCACCAAAGGCACGCTGAATGGTGTTCCGGCGGTAATGCCGGGCATGTGGGGCGATC ATCTTGGGGTGGTCGACTTACAACTCAGTAATGACAGCGGTAAATGGCAGGTGACGCAGGCGAAAGCGGAAGCACGGCCG ATTTACGACATCGCCAATAAAAAATCCCTCGCGGCGGAAGACAGCAAGCTGGTAGAAACACTCAAAGCCGATCACGATGC CACACGCCAGTTCGTCAGCAAGCCAATCGGTAAATCTGCCGACAATATGTATAGCTATCTGGCGCTGGTGCAGGACGATC CGACCGTGCAAGTCGTGAACAACGCGCAAAAAGCGTATGTCGAACATTACATTCAGGGCGATCCGGATCTGGCAAAACTG CCGGTGCTTTCAGCTGCCGCACCGTTTAAAGTTGGTGGTCGCAAAAATGACCCGGCAAGCTATGTGGAGGTGGAAAAAGG CCAGTTGACCTTCCGTAATGCCGCCGATCTTTATCTCTACCCCAATACGCTGATTGTAGTGAAAGCCAGCGGTAAAGAGG TGAAAGAGTGGCTGGAGTGCTCCGCCGGACAGTTTAACCAGATTGCTCCTAACAGCACGAAACCACAGTCACTCATCAAC TGGGATGGTTTCCGCACTTATAACTTTGATGTTATTGATGGTGTGAATTATCAGATTGATGTTACCCAACCCGCCCGCTA TGACGGCGAGTGCCAGATGATTAATGCCAATGCAGAGCGGATTAAGAACCTGACCTTTAATGGCAAGCCGATTGATCCGA ACGCTATGTTCCTGGTTGCCACCAATAACTATCGCGCTTACGGCGGCAAATTTGCCGGTACGGGCGACAGCCATATCGCT TTTGCTTCACCGGATGAGAACCGCTCGGTGCTGGCAGCGTGGATTGCTGATGAGTCGAAACGTGCGGGGGAAATTCATCC GGCGGCAGATAACAACTGGCGTTTAGCACCGATAGCTGCCGATAAGAAACTGGATATCCGTTTCGAAACTTCCCCGTCAG ATAAAGCCGCAGCGTTTATTAAAGAGAAAGGGCAGTATCCGATGAATAAAGTCGCGACCGATGATATCGGGTTTGCGATT TATCAGGTGGATTTGAGTAAGTAA
Upstream 100 bases:
>100_bases ATTTTCAAAGCGTAAAATTGTGGCATTCTTCACTGTTCTATAAGTAAGGCGTTTATTCTCCCTTTTCTTTCGTATTCCCG ATGATAAAAGGATGTCCCTG
Downstream 100 bases:
>100_bases AACACTTCTTTTTCGGCCTATAAATCAACCGCATCCGGCATTTATTGGCGGATGCGATGCTGCCGTATCTTATCCACCCT ACAAGCCATGAACCGTAGAC
Product: bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein
Products: NA
Alternate protein names: NA
Number of amino acids: Translated: 647; Mature: 647
Protein sequence:
>647_residues MIKFSATLLATLIAASVNAATVDLRIMETTDLHSNMMDFDYYKDTATEKFGLVRTASLINDARNEVKNSVLVDNGDLIQG SPLADYMSAKGLKAGDVHPVYKALNTLDYTVGTLGNHEFNYGLDYLKNALAGAKFPYVNANVIDARTKQPMFTPYLIKDT EVVDKDGKKQTLKIGYIGVVPPQIMGWDKANLSGKVTVNDITETVRKYVPEMREKGADVIVVLAHSGLSADPYKVMAENS VYYLSEIPGVNAIMFGHAHAVFPGKDFADIEGADITKGTLNGVPAVMPGMWGDHLGVVDLQLSNDSGKWQVTQAKAEARP IYDIANKKSLAAEDSKLVETLKADHDATRQFVSKPIGKSADNMYSYLALVQDDPTVQVVNNAQKAYVEHYIQGDPDLAKL PVLSAAAPFKVGGRKNDPASYVEVEKGQLTFRNAADLYLYPNTLIVVKASGKEVKEWLECSAGQFNQIAPNSTKPQSLIN WDGFRTYNFDVIDGVNYQIDVTQPARYDGECQMINANAERIKNLTFNGKPIDPNAMFLVATNNYRAYGGKFAGTGDSHIA FASPDENRSVLAAWIADESKRAGEIHPAADNNWRLAPIAADKKLDIRFETSPSDKAAAFIKEKGQYPMNKVATDDIGFAI YQVDLSK
Sequences:
>Translated_647_residues MIKFSATLLATLIAASVNAATVDLRIMETTDLHSNMMDFDYYKDTATEKFGLVRTASLINDARNEVKNSVLVDNGDLIQG SPLADYMSAKGLKAGDVHPVYKALNTLDYTVGTLGNHEFNYGLDYLKNALAGAKFPYVNANVIDARTKQPMFTPYLIKDT EVVDKDGKKQTLKIGYIGVVPPQIMGWDKANLSGKVTVNDITETVRKYVPEMREKGADVIVVLAHSGLSADPYKVMAENS VYYLSEIPGVNAIMFGHAHAVFPGKDFADIEGADITKGTLNGVPAVMPGMWGDHLGVVDLQLSNDSGKWQVTQAKAEARP IYDIANKKSLAAEDSKLVETLKADHDATRQFVSKPIGKSADNMYSYLALVQDDPTVQVVNNAQKAYVEHYIQGDPDLAKL PVLSAAAPFKVGGRKNDPASYVEVEKGQLTFRNAADLYLYPNTLIVVKASGKEVKEWLECSAGQFNQIAPNSTKPQSLIN WDGFRTYNFDVIDGVNYQIDVTQPARYDGECQMINANAERIKNLTFNGKPIDPNAMFLVATNNYRAYGGKFAGTGDSHIA FASPDENRSVLAAWIADESKRAGEIHPAADNNWRLAPIAADKKLDIRFETSPSDKAAAFIKEKGQYPMNKVATDDIGFAI YQVDLSK >Mature_647_residues MIKFSATLLATLIAASVNAATVDLRIMETTDLHSNMMDFDYYKDTATEKFGLVRTASLINDARNEVKNSVLVDNGDLIQG SPLADYMSAKGLKAGDVHPVYKALNTLDYTVGTLGNHEFNYGLDYLKNALAGAKFPYVNANVIDARTKQPMFTPYLIKDT EVVDKDGKKQTLKIGYIGVVPPQIMGWDKANLSGKVTVNDITETVRKYVPEMREKGADVIVVLAHSGLSADPYKVMAENS VYYLSEIPGVNAIMFGHAHAVFPGKDFADIEGADITKGTLNGVPAVMPGMWGDHLGVVDLQLSNDSGKWQVTQAKAEARP IYDIANKKSLAAEDSKLVETLKADHDATRQFVSKPIGKSADNMYSYLALVQDDPTVQVVNNAQKAYVEHYIQGDPDLAKL PVLSAAAPFKVGGRKNDPASYVEVEKGQLTFRNAADLYLYPNTLIVVKASGKEVKEWLECSAGQFNQIAPNSTKPQSLIN WDGFRTYNFDVIDGVNYQIDVTQPARYDGECQMINANAERIKNLTFNGKPIDPNAMFLVATNNYRAYGGKFAGTGDSHIA FASPDENRSVLAAWIADESKRAGEIHPAADNNWRLAPIAADKKLDIRFETSPSDKAAAFIKEKGQYPMNKVATDDIGFAI YQVDLSK
Specific function: This bifunctional enzyme catalyzes two consecutive reactions during ribonucleic acid degradation. Converts a 2',3'- cyclic nucleotide to a 3'-nucleotide and then the 3'-nucleotide to the corresponding nucleoside and phosphate [H]
COG id: COG0737
COG function: function code F; 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases
Gene ontology:
Cell location: Periplasm [H]
Metaboloic importance: Non_Essential [C]
Operon status: Not Known
Operon components: None
Similarity: Belongs to the 5'-nucleotidase family [H]
Homologues:
Organism=Escherichia coli, GI1790658, Length=647, Percent_Identity=99.2272024729521, Blast_Score=1322, Evalue=0.0, Organism=Escherichia coli, GI1786687, Length=576, Percent_Identity=22.7430555555556, Blast_Score=91, Evalue=2e-19,
Paralogues:
None
Copy number: 100 Molecules/Cell In: Stationary Phase, Rich Media (Based on E. coli). [C]
Swissprot (AC and ID): NA
Other databases:
- InterPro: IPR008334 - InterPro: IPR006146 - InterPro: IPR006179 - InterPro: IPR006294 - InterPro: IPR004843 [H]
Pfam domain/function: PF02872 5_nucleotid_C; PF00149 Metallophos [H]
EC number: =3.1.3.6; =3.1.4.16 [H]
Molecular weight: Translated: 70833; Mature: 70833
Theoretical pI: Translated: 5.55; Mature: 5.55
Prosite motif: PS00785 5_NUCLEOTIDASE_1 ; PS00786 5_NUCLEOTIDASE_2
Important sites: NA
Signals:
None
Transmembrane regions:
None
Cys/Met content:
0.3 %Cys (Translated Protein) 2.5 %Met (Translated Protein) 2.8 %Cys+Met (Translated Protein) 0.3 %Cys (Mature Protein) 2.5 %Met (Mature Protein) 2.8 %Cys+Met (Mature Protein)
Secondary structure:
>Translated Secondary Structure MIKFSATLLATLIAASVNAATVDLRIMETTDLHSNMMDFDYYKDTATEKFGLVRTASLIN CEEEHHHHHHHHHHHCCCEEEEEEEEEEECCCCCCCCCCHHHHCCCHHHHHHHHHHHHHH DARNEVKNSVLVDNGDLIQGSPLADYMSAKGLKAGDVHPVYKALNTLDYTVGTLGNHEFN HHHHHHCCCEEECCCCEECCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHEEECCCCCCCC YGLDYLKNALAGAKFPYVNANVIDARTKQPMFTPYLIKDTEVVDKDGKKQTLKIGYIGVV CCHHHHHHHHCCCCCCEECCEEEECCCCCCCCCEEEEECCCEECCCCCCEEEEEEEEECC PPQIMGWDKANLSGKVTVNDITETVRKYVPEMREKGADVIVVLAHSGLSADPYKVMAENS CHHHCCCCCCCCCCEEEEHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEEEECCC VYYLSEIPGVNAIMFGHAHAVFPGKDFADIEGADITKGTLNGVPAVMPGMWGDHLGVVDL EEEEECCCCCCEEEECCEEEECCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCEEEEE QLSNDSGKWQVTQAKAEARPIYDIANKKSLAAEDSKLVETLKADHDATRQFVSKPIGKSA EECCCCCCEEEEECCCCCCCCHHHCCCCCCCCCHHHHHHHHHCCHHHHHHHHHCCCCCCH DNMYSYLALVQDDPTVQVVNNAQKAYVEHYIQGDPDLAKLPVLSAAAPFKVGGRKNDPAS HHHEEEEEEECCCCCEEEECCHHHHHHHHHHCCCCCHHHCCEECCCCCEECCCCCCCCCC YVEVEKGQLTFRNAADLYLYPNTLIVVKASGKEVKEWLECSAGQFNQIAPNSTKPQSLIN EEEEECCEEEEECCCEEEECCCEEEEEECCCHHHHHHHHCCCCCCCCCCCCCCCCCHHCC WDGFRTYNFDVIDGVNYQIDVTQPARYDGECQMINANAERIKNLTFNGKPIDPNAMFLVA CCCEEEEEEEEECCCCEEEEECCCCCCCCCEEEEECCHHHHHCCCCCCCCCCCCCEEEEE TNNYRAYGGKFAGTGDSHIAFASPDENRSVLAAWIADESKRAGEIHPAADNNWRLAPIAA ECCEEECCCEECCCCCCEEEEECCCCCCEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEC DKKLDIRFETSPSDKAAAFIKEKGQYPMNKVATDDIGFAIYQVDLSK CCEEEEEEECCCCHHHHHHHHHCCCCCCHHCCCCCCCEEEEEEEECC >Mature Secondary Structure MIKFSATLLATLIAASVNAATVDLRIMETTDLHSNMMDFDYYKDTATEKFGLVRTASLIN CEEEHHHHHHHHHHHCCCEEEEEEEEEEECCCCCCCCCCHHHHCCCHHHHHHHHHHHHHH DARNEVKNSVLVDNGDLIQGSPLADYMSAKGLKAGDVHPVYKALNTLDYTVGTLGNHEFN HHHHHHCCCEEECCCCEECCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHEEECCCCCCCC YGLDYLKNALAGAKFPYVNANVIDARTKQPMFTPYLIKDTEVVDKDGKKQTLKIGYIGVV CCHHHHHHHHCCCCCCEECCEEEECCCCCCCCCEEEEECCCEECCCCCCEEEEEEEEECC PPQIMGWDKANLSGKVTVNDITETVRKYVPEMREKGADVIVVLAHSGLSADPYKVMAENS CHHHCCCCCCCCCCEEEEHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCEEEEECCC VYYLSEIPGVNAIMFGHAHAVFPGKDFADIEGADITKGTLNGVPAVMPGMWGDHLGVVDL EEEEECCCCCCEEEECCEEEECCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCEEEEE QLSNDSGKWQVTQAKAEARPIYDIANKKSLAAEDSKLVETLKADHDATRQFVSKPIGKSA EECCCCCCEEEEECCCCCCCCHHHCCCCCCCCCHHHHHHHHHCCHHHHHHHHHCCCCCCH DNMYSYLALVQDDPTVQVVNNAQKAYVEHYIQGDPDLAKLPVLSAAAPFKVGGRKNDPAS HHHEEEEEEECCCCCEEEECCHHHHHHHHHHCCCCCHHHCCEECCCCCEECCCCCCCCCC YVEVEKGQLTFRNAADLYLYPNTLIVVKASGKEVKEWLECSAGQFNQIAPNSTKPQSLIN EEEEECCEEEEECCCEEEECCCEEEEEECCCHHHHHHHHCCCCCCCCCCCCCCCCCHHCC WDGFRTYNFDVIDGVNYQIDVTQPARYDGECQMINANAERIKNLTFNGKPIDPNAMFLVA CCCEEEEEEEEECCCCEEEEECCCCCCCCCEEEEECCHHHHHCCCCCCCCCCCCCEEEEE TNNYRAYGGKFAGTGDSHIAFASPDENRSVLAAWIADESKRAGEIHPAADNNWRLAPIAA ECCEEECCCEECCCCCCEEEEECCCCCCEEEEEEECCCCCCCCCCCCCCCCCEEEEEEEC DKKLDIRFETSPSDKAAAFIKEKGQYPMNKVATDDIGFAIYQVDLSK CCEEEEEEECCCCHHHHHHHHHCCCCCCHHCCCCCCCEEEEEEEECC
PDB accession: NA
Resolution: NA
Structure class: Alpha Beta
Cofactors: NA
Metal ions: NA
Kcat value (1/min): NA
Specific activity: NA
Km value (mM): NA
Substrates: NA
Specific reaction: NA
General reaction: NA
Inhibitor: NA
Structure determination priority: 9.0
TargetDB status: NA
Availability: NA
References: 3005231; 7610040; 9278503; 2172762; 9298646 [H]