Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   AT730_RS01635 Genome accession   NZ_CP013484
Coordinates   373213..374634 (-) Length   473 a.a.
NCBI ID   WP_064368108.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain ATCC 33787     
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 372783..409105 373213..374634 within 0


Gene organization within MGE regions


Location: 372783..409105
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AT730_RS01630 (AT730_01625) - 372783..373157 (-) 375 WP_005397786.1 CidA/LrgA family protein -
  AT730_RS01635 (AT730_01630) sbcB 373213..374634 (-) 1422 WP_064368108.1 exodeoxyribonuclease I Machinery gene
  AT730_RS01640 (AT730_01635) - 374815..376011 (+) 1197 WP_064368110.1 tyrosine-type recombinase/integrase -
  AT730_RS01645 (AT730_01640) - 376150..376566 (+) 417 WP_064368112.1 hypothetical protein -
  AT730_RS26400 - 376675..377004 (+) 330 WP_079883797.1 tyrosine-type recombinase/integrase -
  AT730_RS01650 (AT730_01645) - 377154..377546 (+) 393 WP_064368114.1 hypothetical protein -
  AT730_RS01655 (AT730_01650) - 377683..378897 (+) 1215 WP_064368117.1 SIR2 family protein -
  AT730_RS01660 (AT730_01655) - 379053..379316 (+) 264 WP_064368119.1 hypothetical protein -
  AT730_RS01665 (AT730_01660) - 379473..380909 (+) 1437 WP_064368121.1 hypothetical protein -
  AT730_RS01670 (AT730_01665) - 381013..381318 (-) 306 WP_064368123.1 helix-turn-helix transcriptional regulator -
  AT730_RS27185 - 381384..381542 (-) 159 WP_020333055.1 hypothetical protein -
  AT730_RS01675 (AT730_01670) - 381517..381918 (-) 402 WP_064368125.1 hypothetical protein -
  AT730_RS01680 (AT730_01675) - 381915..382157 (-) 243 WP_064368127.1 hypothetical protein -
  AT730_RS01685 (AT730_01680) - 382320..382592 (-) 273 WP_025766807.1 hypothetical protein -
  AT730_RS01690 (AT730_01685) - 382859..383521 (-) 663 WP_025766806.1 LexA family protein -
  AT730_RS01695 (AT730_01690) - 383637..383846 (+) 210 WP_025766805.1 helix-turn-helix domain-containing protein -
  AT730_RS01700 (AT730_01695) - 383899..384447 (+) 549 WP_053807278.1 toxin YdaT family protein -
  AT730_RS28140 - 384507..384638 (+) 132 WP_255201246.1 hypothetical protein -
  AT730_RS27865 - 384635..385420 (+) 786 WP_231972236.1 hypothetical protein -
  AT730_RS01710 (AT730_01705) - 385417..386148 (+) 732 WP_064368129.1 ATP-binding protein -
  AT730_RS01715 (AT730_01710) - 386149..386730 (+) 582 WP_064368131.1 hypothetical protein -
  AT730_RS01720 (AT730_01715) - 387301..388299 (+) 999 WP_064368133.1 hypothetical protein -
  AT730_RS01725 (AT730_01720) - 388299..389489 (+) 1191 WP_064368135.1 hypothetical protein -
  AT730_RS01730 (AT730_01725) - 389491..390156 (+) 666 WP_025634229.1 hypothetical protein -
  AT730_RS01735 (AT730_01730) - 390347..390634 (+) 288 WP_064368136.1 hypothetical protein -
  AT730_RS01740 (AT730_01735) - 390600..391058 (+) 459 WP_064368139.1 hypothetical protein -
  AT730_RS01745 (AT730_01740) - 391100..391285 (+) 186 WP_025766795.1 hypothetical protein -
  AT730_RS01750 (AT730_01745) - 391613..392827 (+) 1215 WP_064368140.1 tyrosine-type recombinase/integrase -
  AT730_RS01755 (AT730_01750) - 393276..393845 (+) 570 WP_064368144.1 terminase small subunit -
  AT730_RS01760 (AT730_01755) - 393799..395790 (+) 1992 WP_231972238.1 terminase gpA endonuclease subunit -
  AT730_RS01765 (AT730_01760) - 395784..396311 (+) 528 WP_064368146.1 hypothetical protein -
  AT730_RS01770 (AT730_01765) - 396311..397870 (+) 1560 WP_064368148.1 phage portal protein -
  AT730_RS01775 (AT730_01770) - 397836..399809 (+) 1974 WP_064368151.1 phage major capsid protein -
  AT730_RS01780 (AT730_01775) - 399869..400060 (+) 192 WP_025632827.1 hypothetical protein -
  AT730_RS01785 (AT730_01780) - 400053..400331 (+) 279 WP_025766788.1 ATP-binding sugar transporter from pro-phage family protein -
  AT730_RS01790 (AT730_01785) - 400328..400960 (+) 633 WP_064368153.1 phage tail protein -
  AT730_RS01795 (AT730_01790) gpU 400950..401396 (+) 447 WP_064368155.1 phage tail terminator protein -
  AT730_RS01800 (AT730_01795) - 401399..401902 (+) 504 WP_029822208.1 phage tail tube protein -
  AT730_RS01805 (AT730_01800) - 401906..402376 (+) 471 WP_064368158.1 phage minor tail protein domain-containing protein -
  AT730_RS01810 (AT730_01805) - 402442..402726 (+) 285 WP_025500496.1 phage tail assembly protein T -
  AT730_RS01815 (AT730_01810) - 402707..404956 (+) 2250 WP_064368160.1 hypothetical protein -
  AT730_RS01820 (AT730_01815) - 404956..405507 (+) 552 WP_025500492.1 hypothetical protein -
  AT730_RS01825 (AT730_01820) - 405518..405970 (+) 453 WP_229652147.1 DUF1833 family protein -
  AT730_RS01830 (AT730_01825) - 405967..406389 (+) 423 WP_229636717.1 hypothetical protein -
  AT730_RS01835 (AT730_01830) - 406346..409105 (+) 2760 WP_064368161.1 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=162990 AT730_RS01635 WP_064368108.1 373213..374634(-) (sbcB) [Vibrio alginolyticus strain ATCC 33787]
MNNTEQPTFFFFDYETWGTNPAKDRPSQFAGVRTDENFNIIGEPLVMYCQPPADYLPSPEAALITGITPQKTVQEGLSEP
EFIAKIHAELAKPNTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVLRACHALRPEGVEWPENEDGFT
SFKLEHLSVANGIEHSNAHDAMADVVATIEMAKKVKAAQPKLFDYFFSMRQKRKLNDLVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELHERLYTKREDLGELLPVPVKLVHLNKCPILAPAKTLTAENAES
IGIDRQQCLANLALLRQHPEIREKLISLFSVERKFDKSDDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARNFPGTLDEQEQRRWALHCREVFESQIEEYMLNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=162990 AT730_RS01635 WP_064368108.1 373213..374634(-) (sbcB) [Vibrio alginolyticus strain ATCC 33787]
ATGAATAATACCGAACAGCCTACATTCTTCTTCTTTGATTATGAGACATGGGGAACCAACCCCGCGAAAGATCGCCCAAG
CCAGTTTGCTGGTGTTCGTACAGATGAAAACTTTAATATCATCGGCGAGCCTTTAGTCATGTACTGCCAGCCACCTGCTG
ATTATCTTCCGTCTCCTGAAGCTGCACTTATTACTGGTATTACTCCGCAAAAAACGGTTCAAGAAGGCCTTTCTGAGCCA
GAGTTTATCGCTAAGATTCACGCTGAACTCGCGAAACCAAATACTACCAGTTTAGGCTACAACAGCATTCGCTTTGATGA
CGAAGTGACCCGTTATACTTGTTATCGCAACTTTATCGATCCATACGCATGGAGTTGGCAAAACGGTAACTCACGTTGGG
ATTTACTCGATGTACTACGCGCGTGCCATGCCCTTCGCCCAGAAGGCGTAGAATGGCCAGAAAACGAAGATGGCTTCACT
AGCTTTAAATTAGAACACTTGTCTGTGGCTAACGGCATAGAGCATAGTAACGCGCACGATGCCATGGCAGATGTGGTTGC
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

Multiple sequence alignment