Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   GPY30_RS06880 Genome accession   NZ_CP046791
Coordinates   1543407..1544828 (-) Length   473 a.a.
NCBI ID   WP_061894049.1    Uniprot ID   -
Organism   Vibrio navarrensis strain 2462-79     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1538407..1549828
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY30_RS06855 - 1539096..1539749 (+) 654 WP_158133449.1 thiopurine S-methyltransferase -
  GPY30_RS06860 purT 1539829..1541004 (-) 1176 WP_039426154.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  GPY30_RS06865 cdd 1541139..1542026 (-) 888 WP_045571552.1 cytidine deaminase -
  GPY30_RS06870 - 1542308..1542985 (-) 678 WP_158133450.1 LrgB family protein -
  GPY30_RS06875 - 1542987..1543358 (-) 372 WP_039426160.1 CidA/LrgA family protein -
  GPY30_RS06880 sbcB 1543407..1544828 (-) 1422 WP_061894049.1 exodeoxyribonuclease I Machinery gene
  GPY30_RS06885 - 1544964..1545662 (-) 699 WP_158133451.1 NAD(P)H-binding protein -
  GPY30_RS06890 cobT 1545803..1546831 (+) 1029 WP_158133452.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  GPY30_RS06895 - 1546832..1547605 (+) 774 WP_158133453.1 adenosylcobinamide-GDP ribazoletransferase -
  GPY30_RS06900 cobU 1547614..1548162 (+) 549 WP_158133454.1 bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase -
  GPY30_RS06905 cobC 1548155..1548814 (+) 660 WP_158133455.1 alpha-ribazole phosphatase family protein -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54685.92 Da        Isoelectric Point: 5.1688

>NTDB_id=407825 GPY30_RS06880 WP_061894049.1 1543407..1544828(-) (sbcB) [Vibrio navarrensis strain 2462-79]
MHQDNQPTFFFFDYETWGVSPAKDRPSQFAGVRTDENFNVIGEPLVIYCRLPSDYLPAPEAALITGITPQKAMQEGLSEP
EFISKIHAELSKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGITWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKLKAAQPKLFDYFFNMRHKRKLNALIDIVNMTPLMHVSGMLGRECQY
TSWVVPLAWHPTNNNAVIVIDLAKDPQPLFELSAEQLHERLYTKREDLDELLPVPVKLVHLNKCPILAPAKTLTAENAAN
IGIDREQCLANLAQIRQHPEVREKLVQLFSIEREFADSDDVDSKLYDGFFSPADRAAMDIIRQTEPNNLAALDITFNDKR
IDPLLFRYRARNYPWTLNESEQRRWANHCREYFESRIEEYMLNLENLVHEHESDEKKIAILKSVYRYTESLIS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=407825 GPY30_RS06880 WP_061894049.1 1543407..1544828(-) (sbcB) [Vibrio navarrensis strain 2462-79]
ATGCACCAGGATAATCAGCCTACATTCTTCTTCTTTGATTATGAAACTTGGGGAGTAAGCCCCGCTAAAGACCGCCCTTC
CCAGTTTGCGGGGGTACGCACCGACGAAAATTTCAATGTGATTGGCGAGCCGCTGGTTATCTACTGCCGATTGCCAAGCG
ACTATCTTCCAGCGCCAGAAGCGGCCTTGATTACCGGCATTACCCCGCAAAAAGCGATGCAAGAGGGGCTGTCTGAGCCC
GAATTTATTAGCAAAATCCATGCAGAGCTGTCAAAACCCAACACCACTAGCCTTGGCTACAACAGCATTCGTTTTGACGA
TGAAGTCACTCGCTATACTTGCTATCGCAATTTCATTGATCCTTATGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ATCTGCTGGATGTGATGCGCGCTTGTCACGCCCTTCGCCCAGAAGGCATTACTTGGCCGGAAAATGATGAGGGCTTTACC
AGCTTCAAATTGGAGCATCTGTCCGTCGCCAACGGCATAGAACACAGTAACGCGCACGATGCGATGGCCGATGTCATTGC
CACGATTGAGATGGCCAAAAAGCTCAAAGCGGCCCAGCCGAAACTGTTTGATTACTTTTTCAACATGCGCCACAAACGTA
AGCTGAATGCGCTGATTGATATCGTCAACATGACCCCCTTGATGCACGTATCCGGCATGCTTGGCCGTGAATGTCAGTAC
ACCAGTTGGGTGGTGCCTTTGGCTTGGCATCCAACCAATAACAACGCTGTGATCGTGATCGATCTGGCGAAAGATCCACA
GCCACTGTTTGAGCTAAGCGCTGAGCAGTTACACGAGCGCCTTTACACCAAGCGAGAAGATCTTGACGAGCTGCTGCCAG
TGCCAGTGAAATTGGTGCATCTCAACAAATGCCCCATTTTAGCGCCCGCGAAAACGCTGACGGCAGAAAATGCGGCGAAT
ATTGGTATTGACCGCGAGCAGTGTTTGGCCAACTTAGCGCAGATCCGTCAACACCCAGAAGTGCGGGAAAAGTTGGTGCA
ACTTTTTTCCATTGAACGCGAATTTGCCGATAGTGACGATGTCGACAGTAAATTGTACGACGGTTTCTTCTCACCAGCCG
ATCGCGCCGCGATGGATATTATTCGTCAAACCGAGCCAAACAACCTCGCTGCGCTCGACATCACCTTTAACGACAAGCGC
ATTGATCCGCTGCTGTTTCGTTATCGTGCGCGTAACTATCCGTGGACATTGAATGAGAGCGAACAACGTCGCTGGGCCAA
CCATTGCCGAGAGTACTTCGAAAGTCGTATTGAAGAGTACATGCTCAATTTGGAAAACTTGGTGCATGAGCACGAAAGCG
ATGAAAAGAAAATAGCGATATTGAAATCGGTTTACCGCTATACTGAGAGCTTGATCTCATAA

Domains

Predicted by InterproScan.

Exonuclease C-terminal (Exonuc_X-T_C)

(210-469)

Exonuclease (RNase_T)

(11-190)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  sbcB Vibrio cholerae O1 biovar El Tor strain E7946

81.184

100

0.812

Multiple sequence alignment