Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   VP_RS06320 Genome accession   NC_004603
Coordinates   1380502..1381923 (-) Length   473 a.a.
NCBI ID   WP_005454911.1    Uniprot ID   A0A0L8TA80
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1375502..1386923
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS06295 (VP1296) - 1376066..1376716 (+) 651 WP_005480776.1 thiopurine S-methyltransferase -
  VP_RS06300 (VP1297) purT 1376818..1377993 (-) 1176 WP_005480612.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  VP_RS06305 (VP1298) cdd 1378141..1379028 (-) 888 WP_005454956.1 cytidine deaminase -
  VP_RS06310 (VP1299) - 1379393..1380070 (-) 678 WP_005480762.1 LrgB family protein -
  VP_RS06315 (VP1300) - 1380072..1380446 (-) 375 WP_005455074.1 CidA/LrgA family protein -
  VP_RS06320 (VP1301) sbcB 1380502..1381923 (-) 1422 WP_005454911.1 exodeoxyribonuclease I Machinery gene
  VP_RS06325 (VP1302) - 1382079..1383452 (-) 1374 WP_005480760.1 L-cystine transporter -
  VP_RS06330 (VP1303) - 1383645..1384340 (-) 696 WP_005480749.1 NAD(P)H-binding protein -
  VP_RS06335 (VP1304) cobT 1385025..1386068 (+) 1044 WP_005480702.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  VP_RS06340 (VP1305) - 1386113..1386865 (+) 753 WP_031778770.1 adenosylcobinamide-GDP ribazoletransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54615.95 Da        Isoelectric Point: 4.9813

>NTDB_id=22748 VP_RS06320 WP_005454911.1 1380502..1381923(-) (sbcB) [Vibrio parahaemolyticus RIMD 2210633]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=22748 VP_RS06320 WP_005454911.1 1380502..1381923(-) (sbcB) [Vibrio parahaemolyticus RIMD 2210633]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTTCCTGCTG
ATTATCTACCTTCTCCGGAAGCCGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAAGGCCTATCTGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACCAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTGACGCGTTACACCTGTTACCGCAACTTTATCGATCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ACTTGCTCGATGTATTGCGTGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCCGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCAGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCACAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACAAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCACCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGCATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGCTTCTTCTCTCCAGCCG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTAGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAGGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
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
  AlphaFold DB A0A0L8TA80

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

79.915

100

0.799

Multiple sequence alignment