Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   ACGHCW_RS07145 Genome accession   NZ_AP031614
Coordinates   1480207..1481628 (-) Length   473 a.a.
NCBI ID   WP_005445536.1    Uniprot ID   A0A9X3ML51
Organism   Vibrio harveyi strain TUMSAT-2019     
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 1471284..1496694 1480207..1481628 within 0


Gene organization within MGE regions


Location: 1471284..1496694
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACGHCW_RS07085 (VHTUMSATKI_13220) - 1471284..1471667 (-) 384 WP_017190329.1 hypothetical protein -
  ACGHCW_RS07090 (VHTUMSATKI_13230) - 1471667..1471927 (-) 261 WP_005445548.1 hypothetical protein -
  ACGHCW_RS07095 (VHTUMSATKI_13240) - 1472080..1472502 (-) 423 WP_017817999.1 hypothetical protein -
  ACGHCW_RS07100 (VHTUMSATKI_13250) - 1472524..1472763 (-) 240 WP_047517048.1 hypothetical protein -
  ACGHCW_RS07105 (VHTUMSATKI_13260) - 1472946..1473824 (-) 879 WP_017818000.1 AEC family transporter -
  ACGHCW_RS07110 (VHTUMSATKI_13270) ihfA 1474351..1474647 (+) 297 WP_005445544.1 integration host factor subunit alpha -
  ACGHCW_RS07115 (VHTUMSATKI_13280) - 1474791..1475564 (-) 774 WP_005445543.1 phosphoribosylglycinamide formyltransferase -
  ACGHCW_RS07120 (VHTUMSATKI_13290) - 1475901..1476551 (+) 651 WP_239213188.1 thiopurine S-methyltransferase -
  ACGHCW_RS07125 (VHTUMSATKI_13300) purT 1476628..1477803 (-) 1176 WP_390502520.1 formate-dependent phosphoribosylglycinamide formyltransferase -
  ACGHCW_RS07130 (VHTUMSATKI_13310) cdd 1477952..1478839 (-) 888 WP_390502521.1 cytidine deaminase -
  ACGHCW_RS07135 (VHTUMSATKI_13320) - 1479095..1479772 (-) 678 WP_005445538.1 LrgB family protein -
  ACGHCW_RS07140 (VHTUMSATKI_13330) - 1479774..1480148 (-) 375 WP_005445537.1 CidA/LrgA family protein -
  ACGHCW_RS07145 (VHTUMSATKI_13340) sbcB 1480207..1481628 (-) 1422 WP_005445536.1 exodeoxyribonuclease I Machinery gene
  ACGHCW_RS07150 (VHTUMSATKI_13350) - 1481790..1482470 (-) 681 WP_005445535.1 DUF1826 domain-containing protein -
  ACGHCW_RS07155 (VHTUMSATKI_13360) - 1482692..1484065 (-) 1374 WP_005445534.1 L-cystine transporter -
  ACGHCW_RS07160 (VHTUMSATKI_13370) - 1484260..1484955 (-) 696 WP_390502522.1 NAD-dependent epimerase/dehydratase family protein -
  ACGHCW_RS07165 (VHTUMSATKI_13380) - 1485690..1486301 (+) 612 WP_017190319.1 flavin reductase family protein -
  ACGHCW_RS07170 (VHTUMSATKI_13390) cobT 1486321..1487364 (+) 1044 WP_390502523.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  ACGHCW_RS07175 (VHTUMSATKI_13400) - 1487364..1488170 (+) 807 WP_390502524.1 adenosylcobinamide-GDP ribazoletransferase -
  ACGHCW_RS07180 (VHTUMSATKI_13410) cobU 1488167..1488718 (+) 552 WP_390502525.1 bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase -
  ACGHCW_RS07185 (VHTUMSATKI_13420) cobC 1488715..1489329 (+) 615 WP_390502526.1 alpha-ribazole phosphatase -
  ACGHCW_RS07190 (VHTUMSATKI_13430) - 1489412..1491211 (+) 1800 WP_390502527.1 M3 family oligoendopeptidase -
  ACGHCW_RS07195 (VHTUMSATKI_13440) - 1491450..1492478 (+) 1029 WP_390502528.1 succinylglutamate desuccinylase -
  ACGHCW_RS07200 (VHTUMSATKI_13450) btuC 1492581..1493576 (+) 996 WP_009697375.1 vitamin B12 ABC transporter permease BtuC -
  ACGHCW_RS07205 (VHTUMSATKI_13460) btuD 1493563..1494330 (+) 768 WP_390502529.1 vitamin B12 ABC transporter ATP-binding protein BtuD -
  ACGHCW_RS07210 (VHTUMSATKI_13470) - 1494418..1494834 (+) 417 WP_009697380.1 lysozyme inhibitor LprI family protein -
  ACGHCW_RS07215 (VHTUMSATKI_13490) - 1495382..1495888 (+) 507 WP_029791093.1 AAA family ATPase -
  ACGHCW_RS07220 (VHTUMSATKI_13500) - 1495921..1496694 (+) 774 WP_239210829.1 nucleotidyltransferase domain-containing protein -

Sequence

Protein


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

>NTDB_id=110671 ACGHCW_RS07145 WP_005445536.1 1480207..1481628(-) (sbcB) [Vibrio harveyi strain TUMSAT-2019]
MHQDNQPTFFFFDYETWGTSPAKDRPSQFAGVRTDENFNIIGEPLVMYCRPPADYLPSPEAALITGITPQKAMQEGLPEP
EFIAKIHAELSKPKTTSLGYNSIRFDDEVTRYTCYRNFIDPYAWSWQNGNSRWDLLDVMRACHALRPEGVEWPENDEGFT
SFKLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFFSMRNKRKLNELVDIVNMTPLMHVSGMLGRECQY
TSWIVPVAWHPTNNNAVITIDLAKDPQPILELSAEELKERLYTKRDELGDLLPVPVKLVHLNKCPILAPAKTLTAENAEV
IGIDRQQCLNNLALLRQHPEIREKLISLFSIEREFEKSNDVDTQLYDGFFSPADRAAMDIIRETDPNNLAALDIEFDDKR
IKPLLFRYRARHYAGTLDEQEQRRWAQHCREVFESQIEEYMMNLENLVHEHESDEKKIAILKSVYRYVESLAS

Nucleotide


Download         Length: 1422 bp        

>NTDB_id=110671 ACGHCW_RS07145 WP_005445536.1 1480207..1481628(-) (sbcB) [Vibrio harveyi strain TUMSAT-2019]
ATGCACCAAGACAATCAGCCCACTTTTTTCTTTTTCGATTACGAGACTTGGGGAACAAGTCCAGCCAAAGACCGCCCAAG
CCAGTTTGCTGGCGTTCGCACTGATGAAAACTTCAATATCATTGGTGAACCTTTGGTGATGTACTGTCGTCCACCTGCTG
ATTACCTTCCTTCGCCAGAAGCAGCTTTGATCACTGGTATTACACCACAAAAAGCAATGCAAGAAGGCTTACCTGAACCT
GAGTTTATCGCCAAAATTCATGCTGAATTGTCTAAACCAAAGACGACTAGCCTTGGCTACAACAGCATACGTTTTGATGA
TGAAGTCACTCGTTACACTTGCTACCGAAACTTCATCGACCCATACGCATGGAGCTGGCAAAACGGCAACTCGCGATGGG
ATTTGCTTGACGTGATGCGCGCATGTCATGCCCTGCGTCCTGAAGGCGTAGAGTGGCCAGAGAACGATGAAGGCTTTACA
AGCTTCAAGCTTGAGCATTTATCCGTGGCTAACGGCATTGAACACAGCAATGCTCACGATGCGATGGCCGACGTGATTGC
CACGATTGAAATGGCGAAGAAAGTTAAAGCCGCCCAACCTAAGCTATTTGACTACTTTTTCTCGATGCGTAACAAGCGCA
AACTCAATGAGCTGGTTGATATTGTCAATATGACTCCGTTAATGCATGTATCAGGCATGCTTGGGCGTGAATGCCAATAC
ACAAGCTGGATTGTGCCTGTGGCTTGGCACCCAACCAACAACAACGCCGTCATCACGATTGATTTAGCCAAAGATCCTCA
GCCTATCCTTGAGCTTTCAGCAGAAGAGTTAAAAGAGCGTTTGTACACCAAGCGTGACGAATTGGGCGACTTACTGCCTG
TACCAGTGAAGCTCGTGCATCTGAACAAGTGCCCTATTCTCGCTCCAGCAAAAACATTAACCGCGGAAAATGCGGAAGTC
ATTGGTATTGACCGCCAACAATGTTTAAACAATTTAGCGTTGTTGCGTCAACACCCAGAGATCCGAGAGAAGCTGATTAG
TCTATTCTCTATAGAACGTGAATTCGAAAAGAGTAATGACGTTGATACGCAGCTTTACGACGGTTTTTTCTCGCCTGCTG
ATCGTGCTGCGATGGACATCATTCGTGAAACCGATCCGAATAACTTAGCCGCACTGGATATTGAATTCGATGATAAACGA
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