Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   FDV79_RS07485 Genome accession   NZ_CP040103
Coordinates   1607706..1609127 (-) Length   473 a.a.
NCBI ID   WP_140380026.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LVP66     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1602706..1614127
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FDV79_RS07460 (FDV79_08000) - 1603270..1603920 (+) 651 WP_025588650.1 thiopurine S-methyltransferase -
  FDV79_RS07465 (FDV79_08005) purT 1604022..1605197 (-) 1176 WP_140380030.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  FDV79_RS07470 (FDV79_08010) cdd 1605345..1606232 (-) 888 WP_140380028.1 cytidine deaminase -
  FDV79_RS07475 (FDV79_08015) - 1606597..1607274 (-) 678 WP_005495502.1 LrgB family protein -
  FDV79_RS07480 (FDV79_08020) - 1607276..1607650 (-) 375 WP_005455074.1 CidA/LrgA family protein -
  FDV79_RS07485 (FDV79_08025) sbcB 1607706..1609127 (-) 1422 WP_140380026.1 exodeoxyribonuclease I Machinery gene
  FDV79_RS07490 (FDV79_08030) - 1609283..1610656 (-) 1374 WP_074544367.1 L-cystine transporter -
  FDV79_RS07495 (FDV79_08035) - 1610849..1611544 (-) 696 WP_025579048.1 NAD(P)H-binding protein -
  FDV79_RS07500 (FDV79_08040) cobT 1612228..1613271 (+) 1044 WP_021453099.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  FDV79_RS07505 (FDV79_08045) - 1613316..1614068 (+) 753 WP_031809668.1 adenosylcobinamide-GDP ribazoletransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54687.03 Da        Isoelectric Point: 5.0454

>NTDB_id=362181 FDV79_RS07485 WP_140380026.1 1607706..1609127(-) (sbcB) [Vibrio parahaemolyticus strain LVP66]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDMLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHRREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=362181 FDV79_RS07485 WP_140380026.1 1607706..1609127(-) (sbcB) [Vibrio parahaemolyticus strain LVP66]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCGCTGGTGATGTACTGCCAGCTTCCTGCCG
ATTATCTACCTTCTCCGGAAGCCGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAAGGCCTATCTGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACTAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTCACGCGTTACACCTGTTACCGCAACTTTATCGACCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ACATGCTCGATGTATTGCGTGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCCGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCAGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCACAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCACCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTAGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAGGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
TCATCGCCGAGAGGTATTTGAAAGCCAAATCGAAGAGTATATGCTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATTGCAATATTAAAATCCGTTTACCGTTATGTAGAGAGCCTAGCCTCCTAA

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

79.325

100

0.795

Multiple sequence alignment