Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   HED12_RS19060 Genome accession   NZ_CP056077
Coordinates   3909607..3911034 (-) Length   475 a.a.
NCBI ID   WP_096938947.1    Uniprot ID   -
Organism   Escherichia coli strain MS1170     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 3904607..3916034
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HED12_RS19025 (HED12_19015) hisL 3905191..3905241 (-) 51 WP_001364200.1 his operon leader peptide -
  HED12_RS19030 (HED12_19020) yefM 3905524..3905775 (+) 252 WP_001259255.1 YoeB-YefM toxin-antitoxin system antitoxin YefM -
  HED12_RS19035 (HED12_19025) yoeB 3905772..3906026 (+) 255 WP_000767826.1 type II toxin-antitoxin system mRNA interferase toxin YoeB -
  HED12_RS19040 (HED12_19030) yeeZ 3906109..3906933 (+) 825 WP_000754737.1 SDR family oxidoreductase -
  HED12_RS19045 (HED12_19035) yeeY 3906979..3907908 (+) 930 WP_023565113.1 LysR substrate-binding domain-containing protein -
  HED12_RS19050 (HED12_19040) yoeI 3908123..3908185 (+) 63 WP_010723108.1 membrane protein YoeI -
  HED12_RS19055 (HED12_19045) plaP 3908175..3909533 (+) 1359 WP_000019194.1 putrescine/proton symporter PlaP -
  HED12_RS19060 (HED12_19050) sbcB 3909607..3911034 (-) 1428 WP_096938947.1 exodeoxyribonuclease I Machinery gene
  HED12_RS19065 (HED12_19055) dacD 3911243..3912409 (+) 1167 WP_001296209.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  HED12_RS19070 (HED12_19060) sbmC 3912528..3913001 (+) 474 WP_001105376.1 DNA gyrase inhibitor SbmC -
  HED12_RS19075 (HED12_19065) yeeA 3913199..3914257 (+) 1059 WP_001200890.1 FUSC family protein -
  HED12_RS19080 (HED12_19070) tmaR 3914428..3914757 (+) 330 WP_000450409.1 DUF496 family protein -
  HED12_RS19085 (HED12_19075) - 3914857..3915300 (-) 444 WP_001189438.1 EutP/PduV family microcompartment system protein -
  HED12_RS19090 (HED12_19080) pduU 3915305..3915655 (-) 351 WP_000211397.1 propanediol utilization microcompartment protein PduU -

Sequence

Protein


Download         Length: 475 a.a.        Molecular weight: 54413.70 Da        Isoelectric Point: 5.6054

>NTDB_id=403371 HED12_RS19060 WP_096938947.1 3909607..3911034(-) (sbcB) [Escherichia coli strain MS1170]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDNEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGGN
EATFAARIHSLFTVPKTCILGYNNVRFDDEVTRNVFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKADLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLAQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=403371 HED12_RS19060 WP_096938947.1 3909607..3911034(-) (sbcB) [Escherichia coli strain MS1170]
ATGATGAATGACGGTAAGCAACAATCTACCTTTTTGTTTCACGATTACGAAACCTTTGGAACGCACCCCGCGTTAGATCG
CCCTGCACAGTTCGCAGCCATTCGCACTGATAACGAATTCAATGTCATCGGCGAACCCGAAGTCTTTTACTGCAAGCCCG
CGGATGACTATTTACCCCAGCCTGGAGCAGTATTAATTACCGGTATTACCCCACAGGAAGCACGGGCGAAAGGAGGAAAC
GAAGCCACGTTTGCCGCCCGTATTCACTCGCTTTTTACCGTACCGAAGACCTGTATTCTGGGCTACAACAATGTGCGTTT
CGACGACGAAGTCACACGCAACGTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGC
GCTGGGATTTACTGGATGTTATGCGTGCCTGTTATGCCCTACGCCCGGAAGGAATAAACTGGCCTGAAAATGATGACGGT
CTACCGAGCTTTCGCCTTGAGCATTTAACCAAAGCGAATGGTATTGAACATAGCAACGCCCACGATGCGATGGCTGATGT
GTACGCCACTATTGCGATGGCGAAACTGGTAAAAACGCGTCAGCCACGCCTGTTTGATTATCTCTTTACCCATCGTAATA
AACACAAACTGATGGCGTTGATTGATGTTCCGCAGATGAAACCCCTGGTTCACGTTTCCGGAATGTTTGGGGCATGGCGC
GGCAATACCAGCTGGGTGGCACCGCTGGCGTGGCATCCTGAAAATCGCAATGCCGTAATTATGGTGGATTTGGCAGGAGA
CATTTCGCCATTACTGGAGCTGGATAGCGACACATTGCGCGAGCGTTTATATACCGCAAAAGCCGATCTTGGCGATAACG
CCGCCGTTCCGGTTAAGCTGGTGCATATCAATAAATGTCCGGTACTGGCCCAGGCGAATACGCTACGCCCGGAAGATGCC
GACCGACTGGGAATTAATCGTCAGCATTGCCTCGATAACCTAAAAATTCTGCGTGAAAATCCGCAAGTGCGTGAAAAAGT
GGTGGCGATATTCGCGGAAGCCGAACCGTTTACGCCTTCAGATAACGTGGATGCACAGCTTTATAATGGCTTTTTCAGTG
ACGCCGATCGTGCAGCAATGAAAATTGTGCTGGAAACCGAGCCGCGTAATTTACCGGCACTGGATATCACTTTTGTTGAT
AAACGAATTGAAAAACTGTTGTTCAATTATCGAGCGCGCAACTTCCCGGGGACGCTGGATTATGCCGAGCAGCAACGCTG
GCTGGAGCACCGCCGCCAGGTCTTCACGCCAGAGTTTTTACAAGGCTATGCTGATGAATTGCAGATGCTGGCACAACAGT
ATGCCGATGACAAAGAGAAAGTGGCGCTGTTAAAAGCGCTTTGGCAGTACGCGGAAGAGATCGTCTGA

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

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

58.936

98.947

0.583