Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   Vt282_RS06370 Genome accession   NZ_AP019649
Coordinates   1366441..1367859 (-) Length   472 a.a.
NCBI ID   WP_162062887.1    Uniprot ID   -
Organism   Vibrio taketomensis strain C4III282     
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 1368270..1378371 1366441..1367859 flank 411


Gene organization within MGE regions


Location: 1366441..1378371
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Vt282_RS06370 sbcB 1366441..1367859 (-) 1419 WP_162062887.1 exodeoxyribonuclease I Machinery gene
  Vt282_RS20530 - 1368270..1369571 (+) 1302 WP_232055128.1 PAS domain S-box protein -
  Vt282_RS20535 - 1369583..1370743 (+) 1161 WP_232055129.1 putative bifunctional diguanylate cyclase/phosphodiesterase -
  Vt282_RS06380 - 1370876..1371613 (+) 738 WP_162062888.1 hypothetical protein -
  Vt282_RS06385 - 1371703..1371915 (-) 213 WP_114764366.1 cold-shock protein -
  Vt282_RS06390 - 1372283..1373653 (-) 1371 WP_162062889.1 L-cystine transporter -
  Vt282_RS06395 - 1373906..1374583 (-) 678 WP_162062890.1 NAD(P)H-binding protein -
  Vt282_RS06400 - 1374801..1375412 (+) 612 WP_162062891.1 flavin reductase family protein -
  Vt282_RS06405 cobT 1375419..1376447 (+) 1029 WP_162046446.1 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase -
  Vt282_RS06410 - 1376447..1377226 (+) 780 WP_162062892.1 adenosylcobinamide-GDP ribazoletransferase -
  Vt282_RS06415 cobU 1377223..1377750 (+) 528 WP_162062893.1 bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase -
  Vt282_RS06420 - 1377754..1378371 (+) 618 WP_162062894.1 histidine phosphatase family protein -

Sequence

Protein


Download         Length: 472 a.a.        Molecular weight: 54472.72 Da        Isoelectric Point: 4.9347

>NTDB_id=73010 Vt282_RS06370 WP_162062887.1 1366441..1367859(-) (sbcB) [Vibrio taketomensis strain C4III282]
MQHQPTFFFFDYETWGTSPAKDRPSQFAGVRTDMDFNIVGEPVVIYCQPPSDYLPSPEAALITGITPQTAVTKGLSEPEF
IAQIHQQLATPNTISLGYNSIRFDDEVTRYTCYRNFFDPYAWSWQNGNSRWDLLDVMRACHALRPEGIEWPENEDGFTSF
KLEHLSVANGIEHSNAHDAMADVIATIEMAKKVKAAQPKLFDYFLSMRHKKKLNELIDIVNMTPLMHVSGMLGRECHYTS
WIVPVAWHPTNQNAVIVVDLAKDPKPLLELDADALRERLYTKHTDLAEDELPVPVKLVHINKCPILAPAKTLTAENAGKI
GINREQCLENLQLLRQHPELREKLIGLFATEREYETQNDVDTQLYDNFFSPADRAAMDIIRQTPAEQLADLDLEYSDARI
APLLFRYRARNYPWTLNENEQLRWQNHCQDYFQSRIDDYMINLENLVHEHESDEKKIALLKSVYQYVEKLVL

Nucleotide


Download         Length: 1419 bp        

>NTDB_id=73010 Vt282_RS06370 WP_162062887.1 1366441..1367859(-) (sbcB) [Vibrio taketomensis strain C4III282]
ATGCAGCATCAGCCAACGTTTTTCTTTTTTGACTATGAAACGTGGGGAACGAGCCCAGCGAAGGATCGACCGAGTCAATT
CGCGGGTGTTCGTACCGACATGGATTTCAATATTGTTGGCGAACCTGTTGTAATTTACTGCCAACCTCCAAGCGATTACT
TGCCTTCTCCAGAGGCTGCGTTGATCACGGGTATTACTCCTCAAACCGCCGTTACTAAAGGGTTATCAGAGCCTGAATTT
ATCGCACAAATTCATCAGCAGCTTGCAACACCAAATACCATTAGCCTTGGCTATAACAGTATTCGTTTTGATGATGAAGT
GACTCGATATACTTGCTACCGCAACTTCTTTGACCCATACGCTTGGAGCTGGCAAAACGGCAATTCTCGTTGGGATCTAT
TGGATGTCATGCGCGCTTGTCATGCGTTGCGCCCAGAAGGGATCGAGTGGCCAGAAAACGAAGACGGCTTTACGAGTTTT
AAGCTCGAACATCTATCCGTCGCTAATGGCATTGAACATAGCAATGCTCACGATGCAATGGCTGACGTTATTGCCACTAT
CGAAATGGCGAAAAAGGTCAAAGCGGCACAGCCAAAGCTGTTCGATTATTTCTTATCAATGCGCCACAAGAAAAAGCTCA
ATGAGTTAATTGATATCGTAAATATGACCCCTCTAATGCACGTATCAGGCATGCTGGGTCGCGAGTGTCATTATACCAGT
TGGATTGTCCCTGTTGCGTGGCACCCAACCAATCAAAATGCAGTTATTGTCGTTGATTTAGCCAAAGATCCCAAACCACT
ACTAGAGCTTGATGCTGACGCATTGAGAGAACGCCTATACACCAAACATACTGACCTAGCAGAAGACGAGCTACCAGTAC
CTGTTAAACTGGTGCATATCAACAAATGCCCTATTCTCGCTCCTGCTAAAACACTCACCGCAGAAAATGCAGGGAAAATC
GGCATCAATCGCGAACAGTGTTTAGAAAACCTGCAGCTTTTGCGTCAACATCCAGAATTGCGTGAAAAACTAATCGGTTT
ATTCGCAACAGAACGTGAATATGAAACGCAAAACGATGTTGATACTCAGCTATACGATAACTTCTTCTCACCAGCCGATC
GCGCAGCGATGGACATTATTCGTCAAACACCAGCAGAGCAGTTAGCTGATCTTGATCTGGAATATAGTGATGCGCGTATC
GCCCCACTATTGTTTAGATATCGTGCTCGTAACTACCCATGGACGCTCAACGAAAACGAACAACTTCGTTGGCAAAATCA
CTGTCAGGATTACTTCCAAAGTCGCATAGACGACTACATGATAAATCTTGAAAACTTAGTTCATGAACATGAAAGTGATG
AAAAGAAAATCGCTCTATTAAAATCCGTCTATCAATATGTCGAGAAACTTGTTCTCTAG

Domains

Predicted by InterproScan.

Exonuclease (RNase_T)

(9-188)

Exonuclease C-terminal (Exonuc_X-T_C)

(208-468)


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

78.936

99.576

0.786

Multiple sequence alignment