Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   K6745_RS06175 Genome accession   NZ_CP082303
Coordinates   1353507..1354928 (-) Length   473 a.a.
NCBI ID   WP_025766817.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain FJV2     
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 1353077..1392298 1353507..1354928 within 0


Gene organization within MGE regions


Location: 1353077..1392298
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6745_RS06170 (K6745_06150) - 1353077..1353451 (-) 375 WP_005397786.1 CidA/LrgA family protein -
  K6745_RS06175 (K6745_06155) sbcB 1353507..1354928 (-) 1422 WP_025766817.1 exodeoxyribonuclease I Machinery gene
  K6745_RS06180 (K6745_06160) - 1355109..1356320 (+) 1212 WP_238966296.1 tyrosine-type recombinase/integrase -
  K6745_RS06185 (K6745_06165) - 1356448..1357305 (+) 858 WP_238966297.1 hypothetical protein -
  K6745_RS06195 (K6745_06170) gapS4a 1357517..1358470 (+) 954 WP_238966298.1 GapS4a family protein -
  K6745_RS06200 (K6745_06175) gapS4b 1358460..1359572 (+) 1113 WP_238966299.1 GapS4b family protein -
  K6745_RS06205 (K6745_06180) - 1359597..1359902 (-) 306 WP_238966300.1 helix-turn-helix transcriptional regulator -
  K6745_RS06210 (K6745_06185) yejK 1359958..1360968 (-) 1011 WP_238966301.1 nucleoid-associated protein YejK -
  K6745_RS06215 (K6745_06190) - 1361123..1361392 (-) 270 WP_064490398.1 hypothetical protein -
  K6745_RS06220 (K6745_06195) - 1361578..1362237 (-) 660 WP_308414589.1 LexA family protein -
  K6745_RS06225 (K6745_06200) - 1362355..1362594 (+) 240 WP_074191183.1 helix-turn-helix domain-containing protein -
  K6745_RS06230 (K6745_06205) - 1362706..1363254 (+) 549 WP_238966302.1 toxin YdaT family protein -
  K6745_RS24175 - 1363315..1363446 (+) 132 WP_255201246.1 hypothetical protein -
  K6745_RS06235 - 1363443..1364228 (+) 786 WP_238966303.1 hypothetical protein -
  K6745_RS06240 (K6745_06215) - 1364225..1364956 (+) 732 WP_064368129.1 ATP-binding protein -
  K6745_RS06245 (K6745_06220) - 1364957..1365538 (+) 582 WP_238966304.1 hypothetical protein -
  K6745_RS06250 (K6745_06225) - 1365707..1366177 (+) 471 WP_238966305.1 hypothetical protein -
  K6745_RS06255 (K6745_06230) - 1366549..1367616 (+) 1068 WP_238966306.1 hypothetical protein -
  K6745_RS06260 (K6745_06235) - 1367728..1368102 (+) 375 WP_238966307.1 hypothetical protein -
  K6745_RS06265 (K6745_06240) - 1368099..1368779 (+) 681 WP_140050692.1 hypothetical protein -
  K6745_RS06270 (K6745_06245) - 1368914..1369201 (+) 288 WP_053807284.1 hypothetical protein -
  K6745_RS06275 (K6745_06250) - 1369167..1369625 (+) 459 WP_238966308.1 hypothetical protein -
  K6745_RS06280 (K6745_06255) - 1369667..1369852 (+) 186 WP_025766795.1 hypothetical protein -
  K6745_RS06285 (K6745_06260) - 1370438..1371394 (+) 957 WP_238966309.1 tyrosine-type recombinase/integrase -
  K6745_RS06290 (K6745_06265) - 1371843..1372412 (+) 570 WP_025632836.1 terminase small subunit -
  K6745_RS06295 (K6745_06270) - 1372423..1374357 (+) 1935 WP_238966310.1 terminase gpA endonuclease subunit -
  K6745_RS06300 (K6745_06275) - 1374351..1374878 (+) 528 WP_025766792.1 hypothetical protein -
  K6745_RS06305 (K6745_06280) - 1374878..1376437 (+) 1560 WP_238966311.1 phage portal protein -
  K6745_RS06310 (K6745_06285) - 1376403..1378376 (+) 1974 WP_083151000.1 phage major capsid protein -
  K6745_RS06315 (K6745_06290) - 1378436..1378627 (+) 192 WP_140390459.1 hypothetical protein -
  K6745_RS06320 (K6745_06295) - 1378620..1378898 (+) 279 WP_238966312.1 sugar transporter -
  K6745_RS06325 (K6745_06300) - 1378895..1379527 (+) 633 WP_031812305.1 phage tail protein -
  K6745_RS06330 (K6745_06305) gpU 1379517..1379963 (+) 447 WP_025766786.1 phage tail terminator protein -
  K6745_RS06335 (K6745_06310) - 1379966..1380463 (+) 498 WP_238966313.1 phage tail tube protein -
  K6745_RS06340 (K6745_06315) - 1380466..1380948 (+) 483 WP_238966314.1 phage minor tail protein G -
  K6745_RS06345 (K6745_06320) - 1381017..1381304 (+) 288 WP_238966315.1 phage tail assembly protein T -
  K6745_RS06350 (K6745_06325) - 1381285..1383507 (+) 2223 WP_238966316.1 hypothetical protein -
  K6745_RS06355 (K6745_06330) - 1383514..1383981 (+) 468 WP_238966317.1 hypothetical protein -
  K6745_RS06360 (K6745_06335) - 1383981..1388567 (+) 4587 WP_238966318.1 SGNH/GDSL hydrolase family protein -
  K6745_RS06365 (K6745_06340) - 1388564..1389100 (+) 537 WP_005376972.1 DUF1833 family protein -
  K6745_RS06370 (K6745_06345) - 1389100..1389525 (+) 426 WP_238966319.1 phage tail protein -
  K6745_RS06375 (K6745_06350) - 1389485..1392298 (+) 2814 WP_238966320.1 host specificity factor TipJ family phage tail protein -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54380.56 Da        Isoelectric Point: 4.8172

>NTDB_id=601136 K6745_RS06175 WP_025766817.1 1353507..1354928(-) (sbcB) [Vibrio alginolyticus strain FJV2]
MNNTEQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQPPADYLPSPEAALITGITPQKTVQEGLSEP
EFIAKIHAELARPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVANGIEHSNAHDAMADVVATIEMAKKVKAAQPKLFDYFFSMRQKRKLNDLVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELHERLYTKREDLGELLPVPVKLVHLNKCPILAPAKTLTAENAES
IGIDRQQCLANLALLRQHPEIREKLISLFSVERKFDKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=601136 K6745_RS06175 WP_025766817.1 1353507..1354928(-) (sbcB) [Vibrio alginolyticus strain FJV2]
ATGAATAATACCGAACAGCCTACATTCTTCTTCTTTGATTATGAGACATGGGGAACCAACCCCGCGAAAGATCGCCCAAG
CCAGTTTGCTGGTGTTCGTACAGATGAAAACTTTAATATCATCGGCGAGCCTTTAGTCATGTACTGCCAGCCACCTGCTG
ATTATCTTCCGTCTCCTGAAGCTGCGCTTATTACTGGTATTACTCCGCAAAAAACGGTTCAAGAAGGCCTTTCTGAGCCA
GAGTTTATCGCTAAGATTCACGCTGAACTCGCGAGACCAAATACCACCAGTTTAGGCTACAACAGCATTCGCTTTGATGA
CGAAGTGACCCGTTATACTTGTTATCGCAACTTTATCGATCCATACGCATGGAGTTGGCAAAACGGTAACTCGCGTTGGG
ATTTACTCGATGTACTACGCGCGTGCCATGCCCTTCGCCCAGAAGGCGTAGAATGGCCAGAAAACGAAGATGGCTTCACT
AGCTTTAAATTAGAACACTTGTCTGTGGCTAACGGCATAGAACATAGTAACGCGCACGATGCCATGGCAGATGTGGTTGC
GACTATCGAAATGGCAAAGAAAGTAAAAGCAGCGCAACCAAAATTGTTTGATTACTTTTTTTCTATGCGCCAAAAGCGCA
AGCTCAATGATTTAGTCGACATCGTCAACATGACACCGTTGATGCACGTTTCAGGCATGCTAGGGCGCGAATGCCAGTAC
ACTAGCTGGATTGTGCCTGTTGCTTGGCATCCAACCAATAATAACGCCGTTATCACCATCGATTTAGCGAAAGACCCTCA
ACCTATTCTTGAGCTATCCGCAGAAGAGCTGCACGAAAGACTCTACACTAAGCGCGAAGATCTTGGTGAATTGCTACCAG
TGCCAGTTAAACTAGTTCATTTGAACAAATGCCCTATTCTCGCCCCTGCAAAAACGTTAACGGCTGAAAATGCGGAGTCT
ATTGGCATTGATCGCCAGCAATGTCTCGCTAATCTCGCTTTGTTGCGCCAACATCCTGAAATTAGAGAAAAGCTGATTAG
CCTCTTTTCAGTCGAGCGTAAATTCGATAAAAGTGATGACGTCGATACACAGCTTTACGACGGGTTCTTTTCTCCGGCTG
ATCGCGCAGCTATGGATATCATTCGAGAAACCGACCCGAATAATCTTGCTGCATTAGACATTGAATTTGATGACAAGCGT
ATTAAACCTCTATTGTTCCGCTATCGTGCGCGTAACTTCCCAGGCACATTAGACGAGCAAGAACAAAGACGCTGGGCACT
ACACTGTCGAGAAGTGTTTGAAAGCCAAATTGAAGAGTACATGCTGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATTGCGATATTAAAATCCGTGTACCGTTATGTAGAGAGCTTAGCTTCCTAA

Domains

Predicted by InterproScan.

Exonuclease C-terminal (Exonuc_X-T_C)

(210-469)

Exonuclease (RNase_T)

(11-190)


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