Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   VPUCM_RS09520 Genome accession   NZ_CP007004
Coordinates   2050536..2051957 (+) Length   473 a.a.
NCBI ID   WP_005454911.1    Uniprot ID   A0A0L8TA80
Organism   Vibrio parahaemolyticus UCM-V493     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2045536..2056957
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VPUCM_RS09500 (VPUCM_1912) - 2045596..2046348 (-) 753 WP_031776489.1 adenosylcobinamide-GDP ribazoletransferase -
  VPUCM_RS09505 (VPUCM_1913) cobT 2046393..2047436 (-) 1044 WP_021449191.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  VPUCM_RS09510 (VPUCM_1915) - 2048119..2048814 (+) 696 WP_025441998.1 NAD(P)H-binding protein -
  VPUCM_RS09515 (VPUCM_1916) - 2049007..2050380 (+) 1374 WP_005486634.1 L-cystine transporter -
  VPUCM_RS09520 (VPUCM_1917) sbcB 2050536..2051957 (+) 1422 WP_005454911.1 exodeoxyribonuclease I Machinery gene
  VPUCM_RS09525 (VPUCM_1918) - 2052013..2052387 (+) 375 WP_005455074.1 CidA/LrgA family protein -
  VPUCM_RS09530 (VPUCM_1919) - 2052389..2053066 (+) 678 WP_025441999.1 LrgB family protein -
  VPUCM_RS09535 (VPUCM_1920) cdd 2053431..2054318 (+) 888 WP_020840481.1 cytidine deaminase -
  VPUCM_RS09540 (VPUCM_1921) purT 2054466..2055641 (+) 1176 WP_025442000.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  VPUCM_RS09545 (VPUCM_1922) - 2055743..2056393 (-) 651 WP_021822365.1 thiopurine S-methyltransferase -

Sequence

Protein


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

>NTDB_id=115451 VPUCM_RS09520 WP_005454911.1 2050536..2051957(+) (sbcB) [Vibrio parahaemolyticus UCM-V493]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=115451 VPUCM_RS09520 WP_005454911.1 2050536..2051957(+) (sbcB) [Vibrio parahaemolyticus UCM-V493]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTTCCTGCTG
ATTATCTACCTTCTCCGGAAGCTGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAAGGTCTATCCGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACCAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTGACGCGTTACACCTGTTACCGCAACTTTATCGACCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ACTTGCTCGATGTATTGCGTGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCCGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCTGACGTTATCGC
AACGATTGAGATGGCTAAGAAAGTCAAAGCCGCGCAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCACCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAGCGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
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