Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   PQE20_RS02890 Genome accession   NZ_CP117054
Coordinates   689744..691165 (+) Length   473 a.a.
NCBI ID   WP_005445536.1    Uniprot ID   A0A9X3ML51
Organism   Vibrio harveyi strain VH21FL     
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 674680..701347 689744..691165 within 0


Gene organization within MGE regions


Location: 674680..701347
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PQE20_RS02810 (PQE20_02810) - 674680..675453 (-) 774 WP_199478989.1 nucleotidyltransferase domain-containing protein -
  PQE20_RS02815 (PQE20_02815) - 675486..675992 (-) 507 WP_272759585.1 AAA family ATPase -
  PQE20_RS02820 (PQE20_02820) - 676052..676285 (-) 234 WP_005445523.1 hypothetical protein -
  PQE20_RS02825 (PQE20_02825) - 676540..676956 (-) 417 WP_009697380.1 lysozyme inhibitor LprI family protein -
  PQE20_RS02830 (PQE20_02830) btuD 677044..677811 (-) 768 WP_080654225.1 vitamin B12 ABC transporter ATP-binding protein BtuD -
  PQE20_RS02835 (PQE20_02835) btuC 677798..678793 (-) 996 WP_020197786.1 vitamin B12 ABC transporter permease BtuC -
  PQE20_RS02840 (PQE20_02840) - 678896..679924 (-) 1029 WP_038897593.1 succinylglutamate desuccinylase -
  PQE20_RS02845 (PQE20_02845) - 680163..681962 (-) 1800 WP_272759587.1 M3 family oligoendopeptidase -
  PQE20_RS02850 (PQE20_02850) cobC 682045..682659 (-) 615 WP_272759588.1 alpha-ribazole phosphatase -
  PQE20_RS02855 (PQE20_02855) cobU 682656..683204 (-) 549 WP_272759589.1 bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase -
  PQE20_RS02860 (PQE20_02860) - 683201..684007 (-) 807 WP_272759590.1 adenosylcobinamide-GDP ribazoletransferase -
  PQE20_RS02865 (PQE20_02865) cobT 684007..685050 (-) 1044 WP_272759591.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  PQE20_RS02870 (PQE20_02870) - 685070..685681 (-) 612 WP_017190319.1 flavin reductase family protein -
  PQE20_RS02875 (PQE20_02875) - 686417..687112 (+) 696 WP_017818004.1 NAD(P)H-binding protein -
  PQE20_RS02880 (PQE20_02880) - 687307..688680 (+) 1374 WP_053050855.1 L-cystine transporter -
  PQE20_RS02885 (PQE20_02885) - 688902..689582 (+) 681 WP_017190322.1 DUF1826 domain-containing protein -
  PQE20_RS02890 (PQE20_02890) sbcB 689744..691165 (+) 1422 WP_005445536.1 exodeoxyribonuclease I Machinery gene
  PQE20_RS02895 (PQE20_02895) - 691224..691598 (+) 375 WP_005445537.1 CidA/LrgA family protein -
  PQE20_RS02900 (PQE20_02900) - 691600..692277 (+) 678 WP_005445538.1 LrgB family protein -
  PQE20_RS02905 (PQE20_02905) cdd 692533..693420 (+) 888 WP_005445539.1 cytidine deaminase -
  PQE20_RS02910 (PQE20_02910) purT 693569..694744 (+) 1176 WP_272759593.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  PQE20_RS02915 (PQE20_02915) - 694822..695472 (-) 651 WP_042606219.1 thiopurine S-methyltransferase -
  PQE20_RS02920 (PQE20_02920) - 695809..696582 (+) 774 WP_005445543.1 phosphoribosylglycinamide formyltransferase -
  PQE20_RS02925 (PQE20_02925) ihfA 696726..697022 (-) 297 WP_005445544.1 integration host factor subunit alpha -
  PQE20_RS02930 (PQE20_02930) - 697549..698427 (+) 879 WP_017818000.1 AEC family transporter -
  PQE20_RS02935 (PQE20_02935) - 698610..698849 (+) 240 WP_009697363.1 hypothetical protein -
  PQE20_RS02940 (PQE20_02940) - 698871..699293 (+) 423 WP_017817999.1 hypothetical protein -
  PQE20_RS02945 (PQE20_02945) - 699446..699706 (+) 261 WP_272759594.1 hypothetical protein -
  PQE20_RS02950 (PQE20_02950) - 699706..700089 (+) 384 WP_017817997.1 hypothetical protein -
  PQE20_RS02955 (PQE20_02955) - 700080..700418 (+) 339 WP_029791121.1 hypothetical protein -
  PQE20_RS02960 (PQE20_02960) - 700622..701347 (+) 726 WP_272759595.1 metallophosphoesterase family protein -

Sequence

Protein


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

>NTDB_id=782369 PQE20_RS02890 WP_005445536.1 689744..691165(+) (sbcB) [Vibrio harveyi strain VH21FL]
MHQDNQPTFFFFDYETWGTSPAKDRPSQFAGVRTDENFNIIGEPLVMYCRPPADYLPSPEAALITGITPQKAMQEGLPEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGVEWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRNKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELKERLYTKRDELGDLLPVPVKLVHLNKCPILAPAKTLTAENAEV
IGIDRQQCLNNLALLRQHPEIREKLISLFSIEREFEKSNDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARHYAGTLDEQEQRRWAQHCREVFESQIEEYMMNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=782369 PQE20_RS02890 WP_005445536.1 689744..691165(+) (sbcB) [Vibrio harveyi strain VH21FL]
ATGCACCAAGACAATCAGCCCACTTTTTTCTTTTTCGATTACGAGACTTGGGGAACAAGTCCAGCCAAAGACCGCCCAAG
CCAGTTTGCTGGCGTTCGCACTGATGAAAACTTCAATATCATTGGTGAACCTTTGGTGATGTACTGTCGTCCACCTGCTG
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