Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   GSS61_RS04590 Genome accession   NZ_CP047985
Coordinates   1017166..1018587 (-) Length   473 a.a.
NCBI ID   WP_062851360.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain HZ-52     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1012166..1023587
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GSS61_RS04565 (GSS61_04815) - 1012730..1013380 (+) 651 WP_020840479.1 thiopurine S-methyltransferase -
  GSS61_RS04570 (GSS61_04820) purT 1013482..1014657 (-) 1176 WP_005495504.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  GSS61_RS04575 (GSS61_04825) cdd 1014805..1015692 (-) 888 WP_025524997.1 cytidine deaminase -
  GSS61_RS04580 (GSS61_04830) - 1016057..1016734 (-) 678 WP_005454891.1 LrgB family protein -
  GSS61_RS04585 (GSS61_04835) - 1016736..1017110 (-) 375 WP_005455074.1 CidA/LrgA family protein -
  GSS61_RS04590 (GSS61_04840) sbcB 1017166..1018587 (-) 1422 WP_062851360.1 exodeoxyribonuclease I Machinery gene
  GSS61_RS04595 (GSS61_04845) - 1018743..1020116 (-) 1374 WP_005486634.1 L-cystine transporter -
  GSS61_RS04600 (GSS61_04850) - 1020309..1021004 (-) 696 WP_017448627.1 NAD(P)H-binding protein -
  GSS61_RS04605 (GSS61_04855) cobT 1021688..1022731 (+) 1044 WP_062851361.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  GSS61_RS04610 (GSS61_04860) - 1022776..1023528 (+) 753 WP_053317201.1 adenosylcobinamide-GDP ribazoletransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54627.94 Da        Isoelectric Point: 4.9813

>NTDB_id=419039 GSS61_RS04590 WP_062851360.1 1017166..1018587(-) (sbcB) [Vibrio parahaemolyticus strain HZ-52]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLIHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPSTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=419039 GSS61_RS04590 WP_062851360.1 1017166..1018587(-) (sbcB) [Vibrio parahaemolyticus strain HZ-52]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTTCCTGCTG
ATTATCTACCTTCTCCGGAAGCTGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAAGGTCTATCCGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACCAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTGACGCGTTACACCTGTTATCGCAACTTTATCGACCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ATTTGCTCGATGTATTGCGAGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCAGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCTGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCACAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATACATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCGCCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTAGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAAGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
TCATTGCCGAGAGGTATTTGAAAGCCAAATCGAAGAGTATATGCTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATTGCAATATTAAAATCCGTTTACCGTTATGTAGAGAGCCTAGCCTCCTAA

Domains

Predicted by InterproScan.

Exonuclease (RNase_T)

(11-190)

Exonuclease C-terminal (Exonuc_X-T_C)

(210-469)


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

79.704

100

0.797

Multiple sequence alignment