Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   PWW27_RS06305 Genome accession   NZ_CP118576
Coordinates   1434496..1435917 (+) Length   473 a.a.
NCBI ID   WP_274886403.1    Uniprot ID   -
Organism   Vibrio harveyi strain fish1     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1416939..1446098 1434496..1435917 within 0


Gene organization within MGE regions


Location: 1416939..1446098
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PWW27_RS06215 - 1416939..1417712 (-) 774 WP_274886389.1 nucleotidyltransferase domain-containing protein -
  PWW27_RS06220 - 1417745..1418251 (-) 507 WP_009697382.1 AAA family ATPase -
  PWW27_RS06225 - 1418799..1419215 (-) 417 WP_009697380.1 lysozyme inhibitor LprI family protein -
  PWW27_RS06230 - 1419379..1419735 (-) 357 WP_061065108.1 hypothetical protein -
  PWW27_RS06235 - 1419789..1420310 (-) 522 WP_061065109.1 hypothetical protein -
  PWW27_RS06240 - 1420369..1421550 (-) 1182 WP_230845122.1 hypothetical protein -
  PWW27_RS06245 btuD 1421797..1422564 (-) 768 WP_274886391.1 vitamin B12 ABC transporter ATP-binding protein BtuD -
  PWW27_RS06250 btuC 1422551..1423546 (-) 996 WP_009697375.1 vitamin B12 ABC transporter permease BtuC -
  PWW27_RS06255 - 1423648..1424676 (-) 1029 WP_274886392.1 succinylglutamate desuccinylase -
  PWW27_RS06260 - 1424915..1426714 (-) 1800 WP_274886394.1 M3 family oligoendopeptidase -
  PWW27_RS06265 cobC 1426797..1427411 (-) 615 WP_005445528.1 alpha-ribazole phosphatase -
  PWW27_RS06270 cobU 1427408..1427956 (-) 549 WP_274886396.1 bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase -
  PWW27_RS06275 - 1427953..1428759 (-) 807 WP_274886397.1 adenosylcobinamide-GDP ribazoletransferase -
  PWW27_RS06280 cobT 1428759..1429802 (-) 1044 WP_274886398.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  PWW27_RS06285 - 1429822..1430433 (-) 612 WP_274886399.1 flavin reductase family protein -
  PWW27_RS06290 - 1431169..1431864 (+) 696 WP_274886402.1 NAD(P)H-binding protein -
  PWW27_RS06295 - 1432059..1433432 (+) 1374 WP_154203626.1 L-cystine transporter -
  PWW27_RS06300 - 1433654..1434334 (+) 681 WP_005445535.1 DUF1826 domain-containing protein -
  PWW27_RS06305 sbcB 1434496..1435917 (+) 1422 WP_274886403.1 exodeoxyribonuclease I Machinery gene
  PWW27_RS06310 - 1435976..1436350 (+) 375 WP_005445537.1 CidA/LrgA family protein -
  PWW27_RS06315 - 1436352..1437029 (+) 678 WP_005445538.1 LrgB family protein -
  PWW27_RS06320 cdd 1437285..1438172 (+) 888 WP_005445539.1 cytidine deaminase -
  PWW27_RS06325 purT 1438321..1439496 (+) 1176 WP_009697365.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  PWW27_RS06330 - 1439573..1440223 (-) 651 WP_199478978.1 thiopurine S-methyltransferase -
  PWW27_RS06335 - 1440560..1441333 (+) 774 WP_005445543.1 phosphoribosylglycinamide formyltransferase -
  PWW27_RS06340 ihfA 1441477..1441773 (-) 297 WP_005445544.1 integration host factor subunit alpha -
  PWW27_RS06345 - 1442300..1443178 (+) 879 WP_009697364.1 AEC family transporter -
  PWW27_RS06350 - 1443361..1443600 (+) 240 WP_274886404.1 hypothetical protein -
  PWW27_RS06355 - 1443622..1444044 (+) 423 WP_017817999.1 hypothetical protein -
  PWW27_RS06360 - 1444197..1444457 (+) 261 WP_005445548.1 hypothetical protein -
  PWW27_RS06365 - 1444457..1444840 (+) 384 WP_017817997.1 hypothetical protein -
  PWW27_RS06370 - 1444831..1445169 (+) 339 WP_029791121.1 hypothetical protein -
  PWW27_RS06375 - 1445373..1446098 (+) 726 WP_274886405.1 metallophosphoesterase -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54582.95 Da        Isoelectric Point: 5.0410

>NTDB_id=793465 PWW27_RS06305 WP_274886403.1 1434496..1435917(+) (sbcB) [Vibrio harveyi strain fish1]
MHQDNQPTFFFFDYETWGTSPAKDRPSQFAGVRTDENFNIIGEPLVMYCRPPADYLPSPEAALITGITPQKAMQEGLPEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGIEWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRNKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKNPQPILELSAEELKERLYTKRDELGDLLPVPVKLVHLNKCPILAPAKTLTAENAEV
IGIDRQQCLNNLALLRQHPEIREKLISLFSIEREFEKSNDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARHYAGTLDEQEQRRWAQHCREVFESQIEEYMMNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=793465 PWW27_RS06305 WP_274886403.1 1434496..1435917(+) (sbcB) [Vibrio harveyi strain fish1]
ATGCACCAAGACAATCAGCCCACTTTTTTCTTTTTCGATTACGAGACTTGGGGAACAAGTCCAGCCAAAGACCGCCCAAG
CCAGTTTGCTGGCGTTCGCACTGATGAAAACTTCAATATCATTGGTGAACCTTTGGTGATGTACTGTCGTCCACCTGCTG
ATTACCTTCCTTCGCCAGAAGCAGCTTTGATCACTGGTATTACACCGCAAAAAGCAATGCAAGAAGGCTTACCTGAACCT
GAGTTTATCGCCAAAATTCATGCTGAATTGTCTAAACCAAAGACGACTAGCCTTGGCTACAACAGCATACGTTTTGATGA
TGAAGTCACTCGTTACACTTGCTACCGAAACTTCATCGACCCATACGCATGGAGCTGGCAAAACGGCAACTCACGATGGG
ATTTGCTTGACGTGATGCGAGCATGTCATGCCCTGCGTCCTGAAGGTATTGAATGGCCGGAGAACGATGAAGGCTTTACA
AGCTTCAAGCTAGAGCATTTATCCGTAGCGAATGGCATTGAACACAGCAATGCTCACGATGCGATGGCCGACGTGATTGC
CACGATTGAAATGGCGAAGAAAGTTAAAGCCGCCCAACCTAAGCTATTTGACTACTTTTTCTCGATGCGTAACAAGCGCA
AACTCAATGAGCTGGTTGATATTGTCAATATGACTCCGTTGATGCATGTATCAGGCATGCTTGGGCGTGAATGCCAATAC
ACAAGCTGGATTGTGCCTGTGGCTTGGCACCCAACCAACAACAACGCTGTTATCACGATTGATTTAGCCAAAAATCCTCA
GCCGATCCTTGAACTTTCAGCGGAAGAACTGAAAGAACGATTGTACACCAAGCGTGACGAATTGGGCGACTTACTGCCTG
TACCAGTGAAGCTAGTGCATCTGAACAAGTGCCCTATTCTCGCTCCAGCAAAAACATTAACCGCGGAAAATGCGGAAGTC
ATTGGTATTGACCGCCAACAATGTTTAAACAATTTAGCGTTGTTGCGCCAACACCCAGAGATCCGAGAGAAGCTGATTAG
TCTATTCTCTATAGAACGTGAATTCGAAAAGAGTAATGACGTTGATACGCAGCTTTACGATGGCTTTTTCTCGCCTGCTG
ATCGCGCTGCTATGGACATCATTCGTGAAACCGATCCGAATAACTTAGCCGCACTGGACATTGAATTCGATGATAAACGA
ATCAAGCCATTGCTTTTCCGTTACCGTGCTCGCCATTATGCAGGCACATTAGATGAACAAGAACAAAGACGCTGGGCACA
ACATTGTCGTGAAGTTTTCGAAAGTCAGATTGAAGAGTACATGATGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATAGCAATATTAAAATCCGTCTATCGTTATGTAGAGAGCCTAGCCTCCTAA

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

79.281

100

0.793