Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   CU052_RS13280 Genome accession   NZ_CP025537
Coordinates   2776307..2777728 (-) Length   473 a.a.
NCBI ID   WP_005445536.1    Uniprot ID   A0A9X3ML51
Organism   Vibrio harveyi strain 345     
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)
Genomic island 2767054..2780644 2776307..2777728 within 0


Gene organization within MGE regions


Location: 2767054..2780644
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CU052_RS13215 (CU052_13620) - 2767054..2767392 (-) 339 WP_050903088.1 hypothetical protein -
  CU052_RS13220 (CU052_13625) - 2767383..2767766 (-) 384 WP_017817997.1 hypothetical protein -
  CU052_RS13225 (CU052_13630) - 2767766..2768026 (-) 261 WP_005445548.1 hypothetical protein -
  CU052_RS13230 (CU052_13635) - 2768179..2768601 (-) 423 WP_017817999.1 hypothetical protein -
  CU052_RS13235 (CU052_13640) - 2768623..2768862 (-) 240 WP_047517048.1 hypothetical protein -
  CU052_RS13240 (CU052_13645) - 2769045..2769923 (-) 879 WP_101904773.1 AEC family transporter -
  CU052_RS13245 (CU052_13650) ihfA 2770450..2770746 (+) 297 WP_005445544.1 integration host factor subunit alpha -
  CU052_RS13250 (CU052_13655) - 2770890..2771663 (-) 774 WP_005445543.1 phosphoribosylglycinamide formyltransferase -
  CU052_RS13255 (CU052_13660) - 2772000..2772650 (+) 651 WP_005445541.1 thiopurine S-methyltransferase -
  CU052_RS13260 (CU052_13665) purT 2772727..2773902 (-) 1176 WP_009697365.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  CU052_RS13265 (CU052_13670) cdd 2774052..2774939 (-) 888 WP_005445539.1 cytidine deaminase -
  CU052_RS13270 (CU052_13675) - 2775195..2775872 (-) 678 WP_005445538.1 LrgB family protein -
  CU052_RS13275 (CU052_13680) - 2775874..2776248 (-) 375 WP_005445537.1 CidA/LrgA family protein -
  CU052_RS13280 (CU052_13685) sbcB 2776307..2777728 (-) 1422 WP_005445536.1 exodeoxyribonuclease I Machinery gene
  CU052_RS13285 (CU052_13690) - 2778218..2778580 (-) 363 WP_050921748.1 cupin domain-containing protein -
  CU052_RS13290 (CU052_13695) - 2778720..2779355 (-) 636 WP_050921745.1 LysE family translocator -
  CU052_RS13295 (CU052_13700) - 2779949..2780644 (+) 696 WP_042606224.1 aspartate/glutamate racemase family protein -

Sequence

Protein


Download         Length: 473 a.a.        Molecular weight: 54569.91 Da        Isoelectric Point: 4.9808

>NTDB_id=262415 CU052_RS13280 WP_005445536.1 2776307..2777728(-) (sbcB) [Vibrio harveyi strain 345]
MHQDNQPTFFFFDYETWGTSPAKDRPSQFAGVRTDENFNIIGEPLVMYCRPPADYLPSPEAALITGITPQKAMQEGLPEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGVEWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRNKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELKERLYTKRDELGDLLPVPVKLVHLNKCPILAPAKTLTAENAEV
IGIDRQQCLNNLALLRQHPEIREKLISLFSIEREFEKSNDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARHYAGTLDEQEQRRWAQHCREVFESQIEEYMMNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=262415 CU052_RS13280 WP_005445536.1 2776307..2777728(-) (sbcB) [Vibrio harveyi strain 345]
ATGCACCAAGACAATCAGCCCACTTTTTTCTTTTTCGATTACGAGACTTGGGGAACAAGTCCAGCCAAAGACCGCCCAAG
CCAGTTTGCTGGCGTTCGCACTGATGAAAACTTCAATATCATTGGTGAACCTTTGGTCATGTACTGTCGCCCACCTGCTG
ATTACCTTCCTTCGCCAGAAGCAGCTTTGATCACTGGTATTACACCACAAAAAGCAATGCAAGAAGGCTTACCTGAACCT
GAGTTTATCGCCAAAATTCATGCTGAATTGTCTAAACCAAAGACGACTAGCCTTGGCTACAACAGCATACGTTTTGATGA
TGAAGTCACTCGTTACACTTGCTACCGAAACTTCATCGACCCATACGCATGGAGCTGGCAAAACGGCAACTCACGATGGG
ATTTGCTTGACGTGATGCGAGCATGTCATGCCCTGCGTCCTGAAGGCGTAGAATGGCCAGAGAACGATGAAGGCTTTACA
AGCTTCAAGCTAGAGCATTTATCCGTAGCGAATGGCATTGAACACAGCAATGCTCACGATGCGATGGCCGACGTGATTGC
CACGATTGAAATGGCGAAGAAAGTTAAAGCCGCCCAACCTAAGCTATTTGACTACTTTTTCTCGATGCGTAACAAGCGCA
AACTCAATGAGCTGGTTGATATTGTCAATATGACTCCGTTGATGCATGTATCAGGCATGCTTGGGCGTGAATGCCAATAC
ACAAGCTGGATTGTGCCTGTGGCTTGGCACCCAACCAACAACAACGCTGTTATCACGATTGATTTAGCCAAAGATCCTCA
GCCGATCCTTGAACTTTCAGCGGAAGAACTGAAAGAACGATTGTACACCAAGCGTGACGAATTGGGCGACTTACTGCCTG
TACCAGTGAAGCTAGTGCATCTGAACAAGTGCCCTATTCTCGCTCCAGCAAAAACATTAACCGCGGAAAATGCGGAAGTC
ATTGGTATTGACCGCCAACAATGTTTAAACAATTTAGCGTTGTTGCGCCAACACCCAGAGATCCGAGAGAAGCTGATTAG
TCTATTCTCTATAGAACGTGAATTCGAAAAGAGTAATGACGTTGATACGCAGCTTTACGATGGCTTTTTCTCGCCTGCTG
ATCGCGCTGCTATGGACATCATTCGTGAAACCGATCCGAATAACTTAGCCGCACTGGACATTGAATTCGATGATAAACGA
ATCAAGCCATTGCTTTTCCGTTACCGTGCTCGCCATTATGCAGGCACATTAGATGAACAAGAACAAAGACGCTGGGCACA
ACATTGTCGTGAAGTTTTCGAAAGTCAGATTGAAGAGTACATGATGAATTTAGAAAACTTAGTTCACGAACATGAAAGTG
ACGAAAAGAAGATAGCAATATTAAAATCCGTCTATCGTTATGTAGAGAGCCTAGCCTCCTAA

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