Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   LDB16_RS08535 Genome accession   NZ_CP084209
Coordinates   1796067..1797494 (-) Length   475 a.a.
NCBI ID   WP_000980589.1    Uniprot ID   P04995
Organism   Escherichia coli strain EC2648-R2     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 1791067..1802494
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDB16_RS08505 (LDB16_08510) yeeZ 1791122..1791946 (+) 825 WP_000754737.1 SDR family oxidoreductase -
  LDB16_RS08510 (LDB16_08515) yeeY 1791992..1792921 (+) 930 WP_000803351.1 LysR substrate-binding domain-containing protein -
  LDB16_RS08515 (LDB16_08520) yoeI 1793136..1793198 (+) 63 WP_010723108.1 membrane protein YoeI -
  LDB16_RS08520 (LDB16_08525) plaP 1793188..1794546 (+) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  LDB16_RS08525 (LDB16_08530) tsuA 1794725..1795783 (+) 1059 WP_000492339.1 thiosulfate utilization transporter TsuA/YeeE -
  LDB16_RS08530 (LDB16_08535) tsuB 1795797..1796024 (+) 228 WP_000234896.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  LDB16_RS08535 (LDB16_08540) sbcB 1796067..1797494 (-) 1428 WP_000980589.1 exodeoxyribonuclease I Machinery gene
  LDB16_RS08540 (LDB16_08545) dacD 1797703..1798869 (+) 1167 WP_000830156.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  LDB16_RS08545 (LDB16_08550) sbmC 1798988..1799461 (+) 474 WP_001105415.1 DNA gyrase inhibitor SbmC -
  LDB16_RS08550 (LDB16_08555) yeeA 1799659..1800717 (+) 1059 WP_001200891.1 FUSC family protein -
  LDB16_RS08555 (LDB16_08560) tmaR 1800889..1801218 (+) 330 WP_000450409.1 DUF496 family protein -
  LDB16_RS08560 (LDB16_08565) - 1801319..1801501 (-) 183 WP_001016348.1 EutP/PduV family microcompartment system protein -
  LDB16_RS08565 (LDB16_08570) - 1801573..1801701 (+) 129 Protein_1680 transposase domain-containing protein -
  LDB16_RS08570 (LDB16_08575) - 1801990..1802070 (-) 81 Protein_1681 hypothetical protein -
  LDB16_RS08575 (LDB16_08580) yeeW 1802116..1802310 (-) 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=534694 LDB16_RS08535 WP_000980589.1 1796067..1797494(-) (sbcB) [Escherichia coli strain EC2648-R2]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=534694 LDB16_RS08535 WP_000980589.1 1796067..1797494(-) (sbcB) [Escherichia coli strain EC2648-R2]
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