Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   OCU45_RS09305 Genome accession   NZ_AP024873
Coordinates   2098846..2100270 (+) Length   474 a.a.
NCBI ID   WP_072958519.1    Uniprot ID   A0A1M5AL54
Organism   Vibrio gazogenes strain ATCC 29988     
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 2077493..2100733 2098846..2100270 within 0


Gene organization within MGE regions


Location: 2077493..2100733
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCU45_RS09170 - 2077493..2078512 (-) 1020 WP_072958463.1 contractile injection system protein, VgrG/Pvc8 family -
  OCU45_RS09175 - 2078503..2078712 (-) 210 WP_027694413.1 tail protein X -
  OCU45_RS09180 - 2078725..2079105 (-) 381 WP_072958466.1 phage tail protein -
  OCU45_RS09185 - 2079102..2081597 (-) 2496 WP_072958468.1 phage tail tape measure protein -
  OCU45_RS09190 - 2081720..2082280 (-) 561 WP_072958471.1 phage tail assembly protein -
  OCU45_RS09195 - 2082369..2082875 (-) 507 WP_072958473.1 phage major tail tube protein -
  OCU45_RS09200 - 2082875..2084044 (-) 1170 WP_072958476.1 phage tail protein -
  OCU45_RS09205 - 2084037..2084234 (-) 198 WP_072958478.1 hypothetical protein -
  OCU45_RS09210 - 2084719..2085405 (-) 687 WP_072958481.1 hypothetical protein -
  OCU45_RS09215 - 2085624..2086151 (-) 528 WP_072958482.1 phage tail protein -
  OCU45_RS09220 - 2086323..2086520 (-) 198 WP_072958485.1 hypothetical protein -
  OCU45_RS21015 - 2086616..2086729 (-) 114 WP_072958838.1 phage tail assembly chaperone -
  OCU45_RS09230 - 2087078..2087401 (-) 324 WP_077316462.1 tail fiber assembly protein -
  OCU45_RS09235 - 2087401..2088240 (-) 840 WP_072958488.1 hypothetical protein -
  OCU45_RS09240 - 2088605..2088880 (-) 276 WP_072958489.1 hypothetical protein -
  OCU45_RS09245 - 2088895..2090124 (-) 1230 WP_252518330.1 hypothetical protein -
  OCU45_RS09250 - 2090332..2090607 (-) 276 WP_072958492.1 hypothetical protein -
  OCU45_RS09255 - 2090622..2091854 (-) 1233 WP_252518331.1 SUMF1/EgtB/PvdO family nonheme iron enzyme -
  OCU45_RS09260 - 2091845..2092405 (-) 561 WP_072958495.1 phage tail protein -
  OCU45_RS09265 - 2092402..2093166 (-) 765 WP_072958498.1 phage tail protein I -
  OCU45_RS09270 - 2093126..2094127 (-) 1002 WP_072958501.1 baseplate J/gp47 family protein -
  OCU45_RS09275 - 2094099..2094458 (-) 360 WP_021021776.1 phage baseplate protein -
  OCU45_RS09280 - 2094458..2094655 (-) 198 WP_072958503.1 hypothetical protein -
  OCU45_RS09285 - 2094657..2095274 (-) 618 WP_159439580.1 phage baseplate assembly protein V -
  OCU45_RS09290 - 2095258..2095815 (-) 558 WP_072958508.1 hypothetical protein -
  OCU45_RS09295 - 2097042..2097638 (-) 597 WP_072958514.1 hypothetical protein -
  OCU45_RS09300 - 2097849..2098595 (+) 747 WP_072958517.1 S24 family peptidase -
  OCU45_RS09305 sbcB 2098846..2100270 (+) 1425 WP_072958519.1 exodeoxyribonuclease I Machinery gene
  OCU45_RS09310 - 2100368..2100733 (+) 366 WP_072958522.1 CidA/LrgA family protein -

Sequence

Protein


Download         Length: 474 a.a.        Molecular weight: 55018.30 Da        Isoelectric Point: 5.8522

>NTDB_id=88989 OCU45_RS09305 WP_072958519.1 2098846..2100270(+) (sbcB) [Vibrio gazogenes strain ATCC 29988]
MKNNAQPTFFFFDYETWGVHPAKDRPCQFAGVRTDMDFNIIGEPLVIFCQLPVDYLPTPEAALITGITPQQANNKGLSEP
EFIQRIHQELSHPNTTCLGYNNIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVARACHALRPEGVVWPENEDGNT
SFKLEHLSVANGIEHSNAHDAMADVYATIELAKVIKNAQPKLFDYFYSMRHKRKLNALIDIVSMTPLMHVSGMLGSHCQY
TSWVVPLAWHPHNKNAVIMVDLAKDPQPLFDLNADEIRERLYTKRDDLQEDELPIPVKLVHLNKCPILAPAKTLTAENAR
TIGIDRDKCLHHLSLIKQAQDIREKLVQVFSEERDYPTDTDVDTMLYQDFFNPADKAAMEIIRQTSPEALQDLSISFQDS
RIKPLLFRYRARNYPETLTLHEQKQWQSHCQDYFSQHMDDYSLRLENLAHEHEQDPHKMQILKSIYQYVLNLTS

Nucleotide


Download         Length: 1425 bp        

>NTDB_id=88989 OCU45_RS09305 WP_072958519.1 2098846..2100270(+) (sbcB) [Vibrio gazogenes strain ATCC 29988]
ATGAAAAACAACGCACAACCAACATTCTTCTTTTTCGATTATGAAACCTGGGGAGTCCATCCCGCAAAAGATCGTCCCTG
TCAGTTTGCCGGGGTCAGAACAGATATGGACTTCAACATCATTGGCGAGCCGCTGGTCATCTTCTGTCAACTGCCGGTCG
ATTATCTGCCGACACCGGAAGCTGCACTCATTACCGGTATCACACCACAGCAAGCCAACAACAAAGGTTTATCAGAGCCC
GAGTTTATTCAACGTATCCATCAGGAATTGTCTCATCCCAATACCACCTGTCTGGGTTATAACAATATCCGTTTTGACGA
TGAAGTAACTCGCTATACCTGTTATCGCAATTTCATTGATCCTTATGCATGGAGCTGGCAAAACGGCAATTCGCGTTGGG
ATCTGCTCGACGTCGCACGAGCCTGCCATGCATTACGCCCGGAAGGGGTTGTGTGGCCTGAAAATGAAGATGGCAATACC
AGCTTTAAACTCGAACATCTTTCCGTTGCAAATGGTATCGAGCATAGCAATGCCCATGATGCGATGGCCGACGTGTATGC
AACCATCGAATTGGCAAAAGTCATCAAGAATGCGCAACCGAAATTATTCGATTATTTCTATTCCATGCGACATAAACGCA
AACTGAATGCTTTAATCGATATTGTCAGTATGACGCCATTAATGCACGTGTCCGGTATGCTCGGCAGCCACTGCCAATAT
ACCAGTTGGGTTGTGCCACTGGCTTGGCATCCGCATAACAAAAATGCGGTTATCATGGTTGATTTGGCGAAAGATCCTCA
ACCACTTTTTGACCTCAATGCTGACGAAATTCGGGAGCGGCTCTACACAAAACGTGATGATTTACAAGAAGATGAGTTAC
CGATCCCGGTGAAGCTGGTTCATCTCAATAAGTGCCCGATCCTCGCTCCTGCCAAGACGCTCACGGCAGAAAATGCGCGT
ACGATTGGCATCGATAGGGACAAATGTTTACATCATTTATCTCTCATAAAACAAGCTCAGGATATCAGAGAAAAGCTGGT
TCAAGTATTTAGTGAAGAGAGAGACTATCCAACGGATACTGACGTCGATACGATGTTATACCAAGACTTTTTCAACCCGG
CTGACAAAGCCGCGATGGAGATTATCCGCCAAACATCGCCCGAAGCCTTACAAGATTTATCAATCTCTTTCCAAGATTCA
CGGATCAAGCCCTTATTATTCCGTTATCGAGCCAGAAACTATCCTGAAACACTCACCTTACATGAACAAAAACAGTGGCA
ATCACACTGTCAGGACTACTTCTCCCAACATATGGATGATTACAGTCTTCGTCTGGAAAATCTGGCTCATGAACATGAGC
AGGATCCCCACAAGATGCAGATTCTGAAATCAATCTACCAATATGTGCTTAACCTGACATCATAA

Domains

Predicted by InterproScan.

Exonuclease C-terminal (Exonuc_X-T_C)

(210-469)

Exonuclease (RNase_T)

(11-191)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A1M5AL54

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

74.207

99.789

0.741

Multiple sequence alignment