Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   K6749_RS06130 Genome accession   NZ_CP082310
Coordinates   1338524..1339945 (-) Length   473 a.a.
NCBI ID   WP_064368108.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain HYV1     
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 1338094..1374538 1338524..1339945 within 0


Gene organization within MGE regions


Location: 1338094..1374538
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K6749_RS06125 (K6749_06115) - 1338094..1338468 (-) 375 WP_005377887.1 CidA/LrgA family protein -
  K6749_RS06130 (K6749_06120) sbcB 1338524..1339945 (-) 1422 WP_064368108.1 exodeoxyribonuclease I Machinery gene
  K6749_RS06135 (K6749_06125) - 1340126..1341322 (+) 1197 WP_238970282.1 site-specific integrase -
  K6749_RS06140 (K6749_06130) - 1341472..1342077 (+) 606 WP_238970283.1 hypothetical protein -
  K6749_RS06145 (K6749_06135) - 1342614..1342967 (+) 354 WP_238970284.1 trypco2 family protein -
  K6749_RS06150 (K6749_06140) - 1343093..1344745 (-) 1653 WP_238970285.1 hypothetical protein -
  K6749_RS06155 (K6749_06145) - 1344868..1345950 (-) 1083 WP_238970286.1 DUF4297 domain-containing protein -
  K6749_RS06160 (K6749_06150) - 1346059..1346361 (-) 303 WP_238970287.1 hypothetical protein -
  K6749_RS06165 (K6749_06155) - 1346526..1347224 (-) 699 WP_238970288.1 hypothetical protein -
  K6749_RS06170 (K6749_06160) - 1347269..1347541 (-) 273 WP_025766807.1 hypothetical protein -
  K6749_RS06175 (K6749_06165) - 1347741..1348937 (+) 1197 WP_238970289.1 BRCT domain-containing protein -
  K6749_RS06180 (K6749_06170) - 1348952..1349638 (-) 687 WP_086046669.1 S24 family peptidase -
  K6749_RS06185 (K6749_06175) - 1349744..1349998 (+) 255 WP_086046670.1 hypothetical protein -
  K6749_RS06190 (K6749_06180) - 1350038..1350586 (+) 549 WP_025632637.1 toxin YdaT family protein -
  K6749_RS23895 - 1350647..1350778 (+) 132 WP_255201246.1 hypothetical protein -
  K6749_RS06195 - 1350775..1351560 (+) 786 WP_238970290.1 hypothetical protein -
  K6749_RS06200 (K6749_06190) - 1351557..1352288 (+) 732 WP_229628073.1 ATP-binding protein -
  K6749_RS06205 (K6749_06195) - 1352289..1352870 (+) 582 WP_213907881.1 hypothetical protein -
  K6749_RS06210 (K6749_06200) - 1352899..1353789 (-) 891 WP_193273651.1 hypothetical protein -
  K6749_RS06215 (K6749_06205) - 1353791..1355455 (-) 1665 WP_193273652.1 AAA family ATPase -
  K6749_RS06220 (K6749_06210) - 1355777..1356064 (+) 288 WP_031812312.1 hypothetical protein -
  K6749_RS06225 (K6749_06215) - 1356030..1356488 (+) 459 WP_086046674.1 hypothetical protein -
  K6749_RS06230 (K6749_06220) - 1356530..1356715 (+) 186 WP_025766795.1 hypothetical protein -
  K6749_RS06235 (K6749_06225) - 1357301..1358257 (+) 957 WP_238970291.1 tyrosine-type recombinase/integrase -
  K6749_RS06240 (K6749_06230) - 1358706..1359275 (+) 570 WP_025632836.1 terminase small subunit -
  K6749_RS06245 (K6749_06235) - 1359286..1361220 (+) 1935 WP_213892157.1 terminase gpA endonuclease subunit -
  K6749_RS06250 (K6749_06240) - 1361214..1361741 (+) 528 WP_213892155.1 hypothetical protein -
  K6749_RS06255 (K6749_06245) - 1361741..1363300 (+) 1560 WP_213892153.1 phage portal protein -
  K6749_RS06260 (K6749_06250) - 1363266..1365239 (+) 1974 WP_213892152.1 phage major capsid protein -
  K6749_RS06265 (K6749_06255) - 1365299..1365490 (+) 192 WP_025632827.1 hypothetical protein -
  K6749_RS06270 (K6749_06260) - 1365483..1365761 (+) 279 WP_025632825.1 ATP-binding sugar transporter from pro-phage family protein -
  K6749_RS06275 (K6749_06265) - 1365758..1366390 (+) 633 WP_213892151.1 phage tail protein -
  K6749_RS06280 (K6749_06270) gpU 1366380..1366826 (+) 447 WP_025632822.1 phage tail terminator protein -
  K6749_RS06285 (K6749_06275) - 1366829..1367332 (+) 504 WP_238970292.1 phage tail tube protein -
  K6749_RS06290 (K6749_06280) - 1367336..1367806 (+) 471 WP_238970293.1 phage minor tail protein G -
  K6749_RS06295 (K6749_06285) - 1367872..1368156 (+) 285 WP_025500496.1 phage tail protein -
  K6749_RS06300 (K6749_06290) - 1368137..1370389 (+) 2253 WP_176310926.1 hypothetical protein -
  K6749_RS06305 (K6749_06295) - 1370389..1370940 (+) 552 WP_238970294.1 hypothetical protein -
  K6749_RS06310 (K6749_06300) - 1370951..1371403 (+) 453 WP_225472820.1 DUF1833 family protein -
  K6749_RS06315 (K6749_06305) - 1371400..1371822 (+) 423 WP_238958875.1 hypothetical protein -
  K6749_RS06320 (K6749_06310) - 1371779..1374538 (+) 2760 WP_176310928.1 host specificity factor TipJ family phage tail protein -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54352.54 Da        Isoelectric Point: 4.8172

>NTDB_id=601229 K6749_RS06130 WP_064368108.1 1338524..1339945(-) (sbcB) [Vibrio alginolyticus strain HYV1]
MNNTEQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQPPADYLPSPEAALITGITPQKTVQEGLSEP
EFIAKIHAELAKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVANGIEHSNAHDAMADVVATIEMAKKVKAAQPKLFDYFFSMRQKRKLNDLVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELHERLYTKREDLGELLPVPVKLVHLNKCPILAPAKTLTAENAES
IGIDRQQCLANLALLRQHPEIREKLISLFSVERKFDKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=601229 K6749_RS06130 WP_064368108.1 1338524..1339945(-) (sbcB) [Vibrio alginolyticus strain HYV1]
ATGAATAATACCGAACAGCCTACATTCTTCTTCTTTGATTATGAGACATGGGGAACCAACCCCGCGAAAGATCGCCCAAG
CCAGTTCGCTGGTGTTCGTACAGATGAAAACTTTAATATCATCGGCGAGCCTTTAGTCATGTACTGCCAGCCACCTGCTG
ATTATCTTCCGTCTCCTGAAGCTGCACTTATTACTGGTATTACTCCGCAAAAAACGGTTCAAGAAGGCCTTTCTGAGCCA
GAGTTTATCGCTAAGATTCACGCTGAACTCGCGAAACCAAATACTACCAGTTTAGGCTACAACAGCATTCGCTTTGATGA
CGAAGTGACCCGTTATACTTGTTATCGCAACTTTATCGATCCATACGCATGGAGTTGGCAAAACGGTAACTCACGTTGGG
ATTTACTCGATGTACTACGCGCGTGCCATGCCCTTCGCCCAGAAGGCGTAGAATGGCCAGAAAACGAAGATGGCTTCACT
AGCTTTAAATTAGAACACTTGTCTGTGGCTAACGGCATAGAACATAGTAACGCGCACGATGCCATGGCAGATGTGGTTGC
GACTATCGAAATGGCAAAGAAAGTAAAAGCAGCGCAACCAAAATTGTTTGATTACTTTTTTTCTATGCGCCAAAAGCGCA
AGCTCAATGATTTAGTCGACATCGTCAACATGACACCGTTGATGCACGTTTCAGGCATGCTAGGGCGCGAATGTCAGTAC
ACTAGCTGGATTGTGCCTGTTGCTTGGCATCCAACCAATAATAACGCCGTTATCACCATCGATTTAGCGAAAGACCCTCA
ACCTATTCTTGAGCTATCCGCAGAAGAGCTGCACGAAAGACTCTACACGAAGCGCGAAGATCTTGGTGAATTGCTACCAG
TGCCAGTTAAACTAGTTCATTTGAACAAATGCCCTATTCTCGCCCCTGCAAAAACGTTAACGGCTGAAAATGCAGAGTCT
ATTGGCATTGATCGCCAACAATGTCTCGCCAATCTCGCTTTGTTGCGCCAACATCCTGAAATTAGAGAAAAGCTGATTAG
CCTCTTTTCCGTCGAGCGTAAATTCGATAAAAGTGATGACGTCGATACACAGCTTTACGACGGGTTCTTTTCTCCGGCTG
ATCGCGCAGCTATGGATATCATTCGAGAAACCGACCCGAACAATCTTGCCGCATTGGACATTGAATTTGATGACAAGCGC
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