Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   R1T29_RS06565 Genome accession   NZ_CP136903
Coordinates   1420009..1421430 (-) Length   473 a.a.
NCBI ID   WP_317676145.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain X1     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1415009..1426430
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R1T29_RS06540 (R1T29_06540) - 1415573..1416223 (+) 651 WP_005480776.1 thiopurine S-methyltransferase -
  R1T29_RS06545 (R1T29_06545) purT 1416325..1417500 (-) 1176 WP_203502722.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  R1T29_RS06550 (R1T29_06550) cdd 1417648..1418535 (-) 888 WP_015296604.1 cytidine deaminase -
  R1T29_RS06555 (R1T29_06555) - 1418900..1419577 (-) 678 WP_005454891.1 LrgB family protein -
  R1T29_RS06560 (R1T29_06560) - 1419579..1419953 (-) 375 WP_005455074.1 CidA/LrgA family protein -
  R1T29_RS06565 (R1T29_06565) sbcB 1420009..1421430 (-) 1422 WP_317676145.1 exodeoxyribonuclease I Machinery gene
  R1T29_RS06570 (R1T29_06570) - 1421586..1422959 (-) 1374 WP_317676146.1 L-cystine transporter -
  R1T29_RS06575 (R1T29_06575) - 1423152..1423847 (-) 696 WP_317676147.1 NAD(P)H-binding protein -
  R1T29_RS06580 (R1T29_06580) cobT 1424531..1425574 (+) 1044 WP_317676148.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  R1T29_RS06585 (R1T29_06585) - 1425619..1426371 (+) 753 WP_317676186.1 adenosylcobinamide-GDP ribazoletransferase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54631.95 Da        Isoelectric Point: 4.9813

>NTDB_id=893303 R1T29_RS06565 WP_317676145.1 1420009..1421430(-) (sbcB) [Vibrio parahaemolyticus strain X1]
MHQDNQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQLPADYLPSPEAALITGITPQKAMQEGLSEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFVDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVKNGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRHKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSTEELHERLYTKREDLGDLLPVPVKLVHLNKCPILAPAKTLTAENAEN
IGIDRQKCLDNLALLRQHPEIREKLIGLFSIERQFEKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPSTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=893303 R1T29_RS06565 WP_317676145.1 1420009..1421430(-) (sbcB) [Vibrio parahaemolyticus strain X1]
ATGCACCAAGATAATCAGCCCACTTTTTTCTTCTTTGACTACGAGACTTGGGGTACAAATCCCGCGAAAGATCGTCCAAG
CCAATTTGCTGGTGTTCGCACAGATGAAAACTTCAATATCATCGGCGAACCTCTGGTGATGTACTGCCAGCTTCCTGCTG
ATTATCTACCTTCTCCGGAAGCCGCATTAATTACGGGTATTACGCCGCAAAAGGCGATGCAAGAGGGTCTATCCGAGCCT
GAGTTCATTGCTAAGATTCACGCCGAGTTATCGAAACCCAAAACCACCAGCCTAGGCTACAACAGCATTCGTTTTGATGA
CGAAGTGACGCGTTACACCTGTTACCGCAACTTTGTCGATCCATACGCGTGGAGCTGGCAAAACGGCAACTCGCGTTGGG
ACTTGCTCGATGTATTGCGTGCATGCCATGCGTTGCGTCCTGAAGGCGTAGAATGGCCCGAGAATGAAGACGGCTTCACC
AGTTTCAAGTTAGAACATTTATCGGTTAAAAATGGCATTGAGCACAGTAATGCGCACGACGCGATGGCTGACGTTATCGC
AACGATTGAGATGGCAAAGAAAGTCAAAGCCGCACAGCCAAAACTGTTCGATTACTTCTTCTCTATGCGCCACAAACGTA
AGCTGAATGAACTGGTTGATATTGTAAACATGACACCGCTGATGCATGTCTCAGGCATGTTAGGTCGCGAATGCCAATAC
ACCAGCTGGATTGTGCCTGTCGCGTGGCATCCAACGAATAACAACGCGGTTATTACGATTGATTTAGCCAAAGATCCGCA
GCCAATTCTTGAACTTTCAACCGAAGAGTTGCACGAACGTCTCTACACCAAGCGTGAAGACCTCGGCGACCTACTACCCG
TACCGGTGAAACTGGTTCACCTCAATAAGTGCCCTATTTTAGCACCAGCGAAAACGTTGACGGCGGAAAACGCAGAAAAC
ATCGGTATTGATCGTCAGAAGTGTCTCGATAATTTGGCACTACTTCGCCAGCACCCTGAGATTCGAGAAAAACTAATCGG
CTTGTTCTCTATCGAACGTCAATTTGAAAAAAGCGATGATGTGGACACTCAACTTTACGATGGGTTCTTCTCTCCAGCTG
ACCGTGCAGCGATGGATATTATCCGCGAAACCGATCCAAACAATCTTGCTGCCTTAGATATCGAGTTTGACGATAAACGC
ATCAAACCGCTGCTATTCAGATACCGTGCTCGTAACTTCCCAAGCACTCTCGATGAGCAAGAGCAACGACGCTGGGCACT
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

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

79.704

100

0.797