Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   DQ225_RS20640 Genome accession   NZ_CP030240
Coordinates   4213025..4214452 (+) Length   475 a.a.
NCBI ID   WP_000980589.1    Uniprot ID   P04995
Organism   Escherichia coli strain ER1709     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4208025..4219452
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DQ225_RS20600 (DQ225_21900) yeeW 4208210..4208404 (+) 195 WP_000988600.1 DUF5983 family protein -
  DQ225_RS22550 (DQ225_21905) - 4208450..4208530 (+) 81 Protein_4017 hypothetical protein -
  DQ225_RS20610 (DQ225_21910) - 4208819..4208947 (-) 129 Protein_4018 transposase domain-containing protein -
  DQ225_RS20615 (DQ225_21915) - 4209019..4209201 (+) 183 WP_001016348.1 EutP/PduV family microcompartment system protein -
  DQ225_RS20620 (DQ225_21920) tmaR 4209302..4209631 (-) 330 WP_000450409.1 DUF496 family protein -
  DQ225_RS20625 (DQ225_21925) yeeA 4209802..4210860 (-) 1059 WP_001200891.1 FUSC family protein -
  DQ225_RS20630 (DQ225_21930) sbmC 4211058..4211531 (-) 474 WP_001105415.1 DNA gyrase inhibitor SbmC -
  DQ225_RS20635 (DQ225_21935) dacD 4211650..4212816 (-) 1167 WP_000830156.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  DQ225_RS20640 (DQ225_21940) sbcB 4213025..4214452 (+) 1428 WP_000980589.1 exodeoxyribonuclease I Machinery gene
  DQ225_RS20645 (DQ225_21945) tsuB 4214495..4214722 (-) 228 WP_000234896.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  DQ225_RS20650 (DQ225_21950) tsuA 4214736..4215794 (-) 1059 WP_000492339.1 thiosulfate utilization transporter TsuA/YeeE -
  DQ225_RS20655 (DQ225_21955) plaP 4215972..4217330 (-) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  DQ225_RS20660 (DQ225_21960) yoeI 4217320..4217382 (-) 63 WP_010723108.1 membrane protein YoeI -
  DQ225_RS20665 (DQ225_21965) yeeY 4217597..4218526 (-) 930 WP_000803351.1 LysR substrate-binding domain-containing protein -
  DQ225_RS20670 (DQ225_21970) yeeZ 4218572..4219396 (-) 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=259474 DQ225_RS20640 WP_000980589.1 4213025..4214452(+) (sbcB) [Escherichia coli strain ER1709]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=259474 DQ225_RS20640 WP_000980589.1 4213025..4214452(+) (sbcB) [Escherichia coli strain ER1709]
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

Multiple sequence alignment