Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   GNY17_RS04175 Genome accession   NZ_CP046411
Coordinates   730407..731828 (+) Length   473 a.a.
NCBI ID   WP_025792139.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 19-021-D1     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 725407..736828
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GNY17_RS04155 (GNY17_04150) - 725466..726218 (-) 753 WP_031792000.1 adenosylcobinamide-GDP ribazoletransferase -
  GNY17_RS04160 (GNY17_04155) cobT 726263..727306 (-) 1044 WP_021453099.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  GNY17_RS04165 (GNY17_04160) - 727990..728685 (+) 696 WP_017448627.1 NAD(P)H-binding protein -
  GNY17_RS04170 (GNY17_04165) - 728878..730251 (+) 1374 WP_025524999.1 L-cystine transporter -
  GNY17_RS04175 (GNY17_04170) sbcB 730407..731828 (+) 1422 WP_025792139.1 exodeoxyribonuclease I Machinery gene
  GNY17_RS04180 (GNY17_04175) - 731884..732258 (+) 375 WP_005455074.1 CidA/LrgA family protein -
  GNY17_RS04185 (GNY17_04180) - 732260..732937 (+) 678 WP_025522457.1 LrgB family protein -
  GNY17_RS04190 (GNY17_04185) cdd 733302..734189 (+) 888 WP_025524997.1 cytidine deaminase -
  GNY17_RS04195 (GNY17_04190) purT 734337..735512 (+) 1176 WP_025792135.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  GNY17_RS04200 (GNY17_04195) - 735614..736264 (-) 651 WP_025792133.1 thiopurine S-methyltransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54626.93 Da        Isoelectric Point: 4.9795

>NTDB_id=404121 GNY17_RS04175 WP_025792139.1 730407..731828(+) (sbcB) [Vibrio parahaemolyticus strain 19-021-D1]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKHEDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPSTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=404121 GNY17_RS04175 WP_025792139.1 730407..731828(+) (sbcB) [Vibrio parahaemolyticus strain 19-021-D1]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTTCCTGCTG
ATTATCTACCTTCTCCGGAAGCTGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAAGGTCTATCCGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACCAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTGACGCGTTACACCTGTTATCGCAACTTTATCGACCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ATTTGCTCGATGTATTGCGAGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCAGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCTGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCACAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCATGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCGCCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTAGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAAGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
TCATTGCCGAGAGGTATTTGAAAGCCAAATCGAAGAGTATATGCTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATTGCAATATTAAAATCCGTTTACCGTTATGTAGAGAGCCTAGCCTCCTAG

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

79.915

100

0.799

Multiple sequence alignment