Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   OCU60_RS10295 Genome accession   NZ_AP024907
Coordinates   2355671..2357095 (+) Length   474 a.a.
NCBI ID   WP_074373471.1    Uniprot ID   -
Organism   Vibrio spartinae strain CECT 9026     
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)
Prophage 2336528..2357552 2355671..2357095 within 0


Gene organization within MGE regions


Location: 2336528..2357552
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCU60_RS10170 - 2336528..2337490 (-) 963 WP_205410501.1 phage late control D family protein -
  OCU60_RS10175 - 2337535..2337744 (-) 210 WP_074373495.1 tail protein X -
  OCU60_RS10180 - 2337741..2338121 (-) 381 WP_074373494.1 phage tail protein -
  OCU60_RS10185 - 2338118..2340640 (-) 2523 WP_074373493.1 phage tail tape measure protein -
  OCU60_RS10190 - 2340781..2341323 (-) 543 WP_074373492.1 phage tail assembly protein -
  OCU60_RS10195 - 2341412..2341918 (-) 507 WP_074373491.1 phage major tail tube protein -
  OCU60_RS10200 - 2341918..2343087 (-) 1170 WP_074373490.1 phage tail protein -
  OCU60_RS10205 - 2343080..2343277 (-) 198 WP_074373489.1 hypothetical protein -
  OCU60_RS10210 - 2343374..2343550 (-) 177 WP_235862186.1 phage tail assembly chaperone -
  OCU60_RS10215 - 2343801..2344487 (-) 687 WP_074373488.1 hypothetical protein -
  OCU60_RS10220 - 2344508..2345047 (-) 540 WP_074373487.1 phage tail protein -
  OCU60_RS10225 - 2345270..2345545 (-) 276 WP_074373486.1 hypothetical protein -
  OCU60_RS10230 - 2345559..2346488 (-) 930 WP_235862185.1 SUMF1/EgtB/PvdO family nonheme iron enzyme -
  OCU60_RS10235 - 2346788..2347339 (-) 552 WP_074373484.1 phage tail protein -
  OCU60_RS10240 - 2347561..2347836 (-) 276 WP_074373483.1 hypothetical protein -
  OCU60_RS10245 - 2347850..2349082 (-) 1233 WP_074373482.1 SUMF1/EgtB/PvdO family nonheme iron enzyme -
  OCU60_RS10250 - 2349082..2349633 (-) 552 WP_074373481.1 phage tail protein -
  OCU60_RS10255 - 2349630..2350394 (-) 765 WP_074373480.1 phage tail protein I -
  OCU60_RS10260 - 2350354..2351355 (-) 1002 WP_074373479.1 baseplate J/gp47 family protein -
  OCU60_RS10265 - 2351327..2351686 (-) 360 WP_074373478.1 phage baseplate protein -
  OCU60_RS10270 - 2351686..2351883 (-) 198 WP_074373477.1 hypothetical protein -
  OCU60_RS10275 - 2351885..2352502 (-) 618 WP_074373476.1 phage baseplate assembly protein V -
  OCU60_RS10280 - 2352486..2353043 (-) 558 WP_074373475.1 hypothetical protein -
  OCU60_RS10285 - 2353867..2354463 (-) 597 WP_074373473.1 hypothetical protein -
  OCU60_RS10290 - 2354674..2355420 (+) 747 WP_074373472.1 S24 family peptidase -
  OCU60_RS10295 sbcB 2355671..2357095 (+) 1425 WP_074373471.1 exodeoxyribonuclease I Machinery gene
  OCU60_RS10300 - 2357196..2357552 (+) 357 WP_074373470.1 CidA/LrgA family protein -

Sequence

Protein


Download         Length: 474 a.a.        Molecular weight: 54968.31 Da        Isoelectric Point: 6.0669

>NTDB_id=89375 OCU60_RS10295 WP_074373471.1 2355671..2357095(+) (sbcB) [Vibrio spartinae strain CECT 9026]
MKNNEQPTFFFFDYETWGVHPAKDRPCQFAGVRTDMDFNIIGEPLVIFCQLPVDYLPAPEAALITGITPQQANSKGLSEP
EFIQRIHQELSHPNTTCLGYNNIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVARACHALRPEGVVWPQNEDGNT
SFKLEHLSVANGIEHTNAHDAMADVYATIELAKVIKNAQPKLFDYFYSMRHKRKLNALIDIVSMTPLMHVSGMLGSHCQY
TSWVVPLAWHPHNKNAVIMVDLAKDPQPLFDLNADEIKERLYTKHEDLQDDELPIPVKLVHLNKCPILAPAKTLTAENAH
TIGIDRDKCLHHLSLMKQAQDIREKLVQVFGEEKDYPTNTDVDTMLYHNFFNPADKAAMEIIRQTSPEALRDLSISFQDS
RITPLLFRYRARNYPETLTMHEQKQWQSHCQDYFSQHMDDYILRLENLAHEHEQDSHKMQILKSIYQYVLNLTS

Nucleotide


Download         Length: 1425 bp        

>NTDB_id=89375 OCU60_RS10295 WP_074373471.1 2355671..2357095(+) (sbcB) [Vibrio spartinae strain CECT 9026]
ATGAAAAACAACGAACAACCAACATTCTTCTTTTTCGATTATGAAACTTGGGGAGTCCATCCCGCAAAAGATCGTCCCTG
TCAGTTTGCCGGGGTCAGAACGGATATGGACTTCAATATCATTGGCGAACCGCTGGTCATCTTCTGTCAACTACCGGTCG
ATTATCTGCCTGCACCGGAAGCTGCACTCATCACCGGTATCACCCCACAACAGGCCAATAGCAAAGGTTTATCAGAGCCA
GAATTTATTCAGCGTATCCATCAGGAATTGTCCCATCCCAATACAACCTGTCTGGGTTATAACAATATCCGTTTTGACGA
TGAAGTGACTCGTTATACCTGTTATCGCAATTTTATTGATCCTTATGCATGGAGCTGGCAAAACGGCAATTCGCGTTGGG
ATCTGCTGGACGTTGCTCGCGCCTGTCATGCATTACGTCCGGAAGGCGTTGTATGGCCTCAGAATGAAGATGGCAATACC
AGCTTTAAACTCGAACATCTTTCCGTTGCAAATGGTATCGAGCATACAAATGCCCATGATGCGATGGCCGACGTGTATGC
AACCATCGAATTGGCAAAAGTCATCAAAAATGCGCAACCGAAATTATTCGATTATTTCTATTCCATGCGCCATAAACGCA
AACTGAATGCGTTAATCGATATTGTCAGTATGACGCCATTAATGCATGTGTCCGGTATGCTCGGCAGCCACTGCCAATAT
ACCAGTTGGGTTGTGCCACTTGCTTGGCATCCGCATAATAAAAATGCGGTCATCATGGTTGATTTGGCGAAGGATCCCCA
GCCACTCTTTGATCTCAATGCTGATGAAATCAAAGAGCGTCTCTATACCAAACATGAAGACTTACAAGATGATGAGTTAC
CGATCCCGGTTAAGCTGGTTCATCTCAATAAATGCCCGATCCTCGCTCCTGCCAAGACGCTAACGGCAGAAAATGCACAT
ACCATCGGGATCGATAGAGACAAATGTTTACATCATTTATCTCTTATGAAGCAAGCTCAGGATATCAGAGAGAAGCTGGT
CCAAGTATTTGGTGAAGAGAAAGACTACCCAACGAATACTGACGTCGATACGATGTTATACCACAACTTTTTCAATCCCG
CGGACAAGGCTGCGATGGAGATTATCCGACAGACATCGCCTGAAGCTTTACGGGATTTATCGATCTCTTTCCAGGACTCA
CGGATCACCCCCTTATTGTTCCGTTATCGAGCCAGAAACTATCCTGAAACACTCACCATGCATGAACAGAAACAGTGGCA
ATCCCACTGTCAGGATTACTTCTCCCAACATATGGATGATTATATTCTTCGTCTGGAAAATCTGGCTCATGAACATGAGC
AGGATTCCCACAAGATGCAGATCCTAAAATCAATCTACCAATATGTGCTGAACCTGACATCATAA

Domains

Predicted by InterproScan.

Exonuclease (RNase_T)

(11-191)

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

73.573

99.789

0.734

Multiple sequence alignment