Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   VPBB_RS06235 Genome accession   NC_019955
Coordinates   1361360..1362781 (-) Length   473 a.a.
NCBI ID   WP_015296605.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus BB22OP     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1356360..1367781
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VPBB_RS06210 (VPBB_1220) - 1356924..1357574 (+) 651 WP_005480776.1 thiopurine S-methyltransferase -
  VPBB_RS06215 (VPBB_1221) purT 1357676..1358851 (-) 1176 WP_015296603.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  VPBB_RS06220 (VPBB_1222) cdd 1358999..1359886 (-) 888 WP_015296604.1 cytidine deaminase -
  VPBB_RS06225 (VPBB_1223) - 1360251..1360928 (-) 678 WP_005454891.1 LrgB family protein -
  VPBB_RS06230 (VPBB_1224) - 1360930..1361304 (-) 375 WP_005455074.1 CidA/LrgA family protein -
  VPBB_RS06235 (VPBB_1225) sbcB 1361360..1362781 (-) 1422 WP_015296605.1 exodeoxyribonuclease I Machinery gene
  VPBB_RS06240 (VPBB_1226) - 1362937..1364310 (-) 1374 WP_005486634.1 L-cystine transporter -
  VPBB_RS06245 (VPBB_1227) - 1364503..1365198 (-) 696 WP_029825904.1 NAD(P)H-binding protein -
  VPBB_RS06250 (VPBB_1229) cobT 1365882..1366925 (+) 1044 WP_005480702.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  VPBB_RS06255 (VPBB_1230) - 1366970..1367722 (+) 753 WP_031791430.1 adenosylcobinamide-GDP ribazoletransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54699.02 Da        Isoelectric Point: 5.0454

>NTDB_id=55486 VPBB_RS06235 WP_015296605.1 1361360..1362781(-) (sbcB) [Vibrio parahaemolyticus BB22OP]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRERQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPSTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=55486 VPBB_RS06235 WP_015296605.1 1361360..1362781(-) (sbcB) [Vibrio parahaemolyticus BB22OP]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTACCTGCTG
ATTATCTACCTTCTCCGGAAGCTGCATTAATTACCGGCATTACGCCGCAAAAGGCGATGCAAGAAGGCCTATCTGAGCCT
GAGTTCATAGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACTAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTCACGCGTTACACCTGTTACCGCAACTTTATCGACCCATACGCTTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ACTTGCTCGATGTATTGCGTGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCCGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCAGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCGCAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCATAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAACGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAATGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCACCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTGGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAAGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
TCATTGCCGAGAGGTATTTGAAAGCCAAATCGAAGAGTATATGTTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
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

80.127

100

0.801

Multiple sequence alignment