Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   LOF66_RS06480 Genome accession   NZ_CP087564
Coordinates   1233984..1235411 (+) Length   475 a.a.
NCBI ID   WP_000980589.1    Uniprot ID   P04995
Organism   Escherichia coli strain CM2010-0578/1     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1228984..1240411
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LOF66_RS06440 (LOF66_06410) yeeW 1229168..1229362 (+) 195 WP_000988600.1 DUF5983 family protein -
  LOF66_RS06445 (LOF66_06415) - 1229408..1229488 (+) 81 Protein_1269 hypothetical protein -
  LOF66_RS06450 (LOF66_06420) - 1229777..1229905 (-) 129 Protein_1270 transposase domain-containing protein -
  LOF66_RS06455 (LOF66_06425) - 1229977..1230159 (+) 183 WP_001016348.1 EutP/PduV family microcompartment system protein -
  LOF66_RS06460 (LOF66_06430) tmaR 1230260..1230589 (-) 330 WP_000450409.1 DUF496 family protein -
  LOF66_RS06465 (LOF66_06435) yeeA 1230761..1231819 (-) 1059 WP_001200891.1 FUSC family protein -
  LOF66_RS06470 (LOF66_06440) sbmC 1232017..1232490 (-) 474 WP_001105415.1 DNA gyrase inhibitor SbmC -
  LOF66_RS06475 (LOF66_06445) dacD 1232609..1233775 (-) 1167 WP_000830156.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  LOF66_RS06480 (LOF66_06450) sbcB 1233984..1235411 (+) 1428 WP_000980589.1 exodeoxyribonuclease I Machinery gene
  LOF66_RS06485 (LOF66_06455) tsuB 1235454..1235681 (-) 228 WP_000234896.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  LOF66_RS06490 (LOF66_06460) tsuA 1235695..1236753 (-) 1059 WP_000492339.1 thiosulfate utilization transporter TsuA/YeeE -
  LOF66_RS06495 (LOF66_06465) plaP 1236932..1238290 (-) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  LOF66_RS06500 (LOF66_06470) yoeI 1238280..1238342 (-) 63 WP_010723108.1 membrane protein YoeI -
  LOF66_RS06505 (LOF66_06475) yeeY 1238557..1239486 (-) 930 WP_000803351.1 LysR substrate-binding domain-containing protein -
  LOF66_RS06510 (LOF66_06480) yeeZ 1239532..1240356 (-) 825 WP_000754737.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 475 a.a.        Molecular weight: 54500.81 Da        Isoelectric Point: 5.4700

>NTDB_id=546071 LOF66_RS06480 WP_000980589.1 1233984..1235411(+) (sbcB) [Escherichia coli strain CM2010-0578/1]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=546071 LOF66_RS06480 WP_000980589.1 1233984..1235411(+) (sbcB) [Escherichia coli strain CM2010-0578/1]
ATGATGAATGACGGTAAGCAACAATCTACCTTTTTGTTTCACGATTACGAAACCTTTGGCACGCACCCCGCGTTAGATCG
CCCTGCACAGTTCGCAGCCATTCGCACCGATAGCGAATTCAATGTCATCGGCGAACCCGAAGTCTTTTACTGCAAGCCCG
CTGATGACTATTTACCCCAGCCAGGAGCCGTATTAATTACCGGTATTACCCCGCAGGAAGCACGGGCGAAAGGAGAAAAC
GAAGCCGCGTTTGCCGCCCGTATTCACTCGCTTTTTACCGTACCGAAGACCTGTATTCTGGGCTACAACAATGTGCGTTT
CGACGACGAAGTCACACGCAACATTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGC
GCTGGGATTTACTGGATGTTATGCGTGCCTGTTATGCCCTGCGCCCGGAAGGAATAAACTGGCCTGAAAATGATGACGGT
CTACCGAGCTTTCGCCTTGAGCATTTAACCAAAGCGAATGGTATTGAACATAGCAACGCCCACGATGCGATGGCTGATGT
GTACGCCACTATTGCGATGGCAAAGCTGGTAAAAACGCGTCAGCCACGCCTGTTTGATTATCTCTTTACCCATCGTAATA
AACACAAACTGATGGCGTTGATTGATGTTCCGCAGATGAAACCCCTGGTGCACGTTTCCGGAATGTTTGGAGCATGGCGC
GGCAATACCAGCTGGGTGGCACCGCTGGCGTGGCATCCTGAAAATCGCAATGCCGTAATTATGGTGGATTTGGCAGGAGA
CATTTCGCCATTACTGGAACTGGATAGCGACACATTGCGCGAGCGTTTATATACCGCAAAAACCGATCTTGGCGATAACG
CCGCCGTTCCGGTTAAGCTGGTGCATATCAATAAATGTCCGGTGCTGGCCCAGGCGAATACGCTACGCCCGGAAGATGCC
GACCGACTGGGAATTAATCGTCAGCATTGCCTCGATAACCTGAAAATTCTGCGTGAAAATCCGCAAGTGCGCGAAAAAGT
GGTGGCGATATTCGCGGAAGCCGAACCGTTTACGCCTTCAGATAACGTGGATGCACAGCTTTATAACGGCTTTTTCAGTG
ACGCAGATCGTGCAGCAATGAAAATTGTGCTGGAAACCGAGCCGCGTAATTTACCGGCACTGGATATCACTTTTGTTGAT
AAACGGATTGAAAAGCTGTTGTTCAATTATCGGGCACGCAACTTCCCGGGGACGCTGGATTATGCCGAGCAGCAACGCTG
GCTGGAGCACCGTCGCCAGGTCTTCACGCCAGAGTTTTTGCAGGGTTATGCTGATGAATTGCAGATGCTGGTACAACAAT
ATGCCGATGACAAAGAGAAAGTGGCGCTGTTAAAAGCACTTTGGCAGTACGCGGAAGAGATTGTCTAA

Domains

Predicted by InterProScan.

Exonuclease (RNase_T)

(13-188)

Exonuclease C-terminal (ExoI_SH3)

(212-472)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  PDB 1FXX
  PDB 2QXF
  PDB 3C94
  PDB 3C95
  PDB 3HL8
  PDB 3HP9
  PDB 4HCB
  PDB 4HCC
  PDB 4JRP
  PDB 4JRQ
  PDB 4JS4
  PDB 4JS5

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

59.149

98.947

0.585