Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   JNN56_RS09535 Genome accession   NZ_CP068814
Coordinates   2025818..2027245 (-) Length   475 a.a.
NCBI ID   WP_000980589.1    Uniprot ID   P04995
Organism   Escherichia coli strain RIVM_C028613     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 2020818..2032245
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN56_RS09505 (JNN56_09505) yeeZ 2020873..2021697 (+) 825 WP_000754737.1 SDR family oxidoreductase -
  JNN56_RS09510 (JNN56_09510) yeeY 2021743..2022672 (+) 930 Protein_1885 LysR substrate-binding domain-containing protein -
  JNN56_RS09515 (JNN56_09515) yoeI 2022887..2022949 (+) 63 WP_010723108.1 membrane protein YoeI -
  JNN56_RS09520 (JNN56_09520) plaP 2022939..2024297 (+) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  JNN56_RS09525 (JNN56_09525) tsuA 2024476..2025534 (+) 1059 WP_000492339.1 thiosulfate utilization transporter TsuA/YeeE -
  JNN56_RS09530 (JNN56_09530) tsuB 2025548..2025775 (+) 228 WP_000234896.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  JNN56_RS09535 (JNN56_09535) sbcB 2025818..2027245 (-) 1428 WP_000980589.1 exodeoxyribonuclease I Machinery gene
  JNN56_RS09540 (JNN56_09540) dacD 2027454..2028620 (+) 1167 WP_000830156.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  JNN56_RS09545 (JNN56_09545) sbmC 2028739..2029212 (+) 474 WP_001105415.1 DNA gyrase inhibitor SbmC -
  JNN56_RS09550 (JNN56_09550) yeeA 2029410..2030468 (+) 1059 WP_001200891.1 FUSC family protein -
  JNN56_RS09555 (JNN56_09555) tmaR 2030640..2030969 (+) 330 WP_000450409.1 DUF496 family protein -
  JNN56_RS09560 (JNN56_09560) - 2031070..2031252 (-) 183 WP_001016348.1 EutP/PduV family microcompartment system protein -
  JNN56_RS09565 (JNN56_09565) - 2031324..2031452 (+) 129 Protein_1896 transposase domain-containing protein -
  JNN56_RS09570 (JNN56_09570) - 2031741..2031821 (-) 81 Protein_1897 hypothetical protein -
  JNN56_RS09575 (JNN56_09575) yeeW 2031867..2032061 (-) 195 WP_000988600.1 DUF5983 family protein -

Sequence

Protein


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

>NTDB_id=462527 JNN56_RS09535 WP_000980589.1 2025818..2027245(-) (sbcB) [Escherichia coli strain RIVM_C028613]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=462527 JNN56_RS09535 WP_000980589.1 2025818..2027245(-) (sbcB) [Escherichia coli strain RIVM_C028613]
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