Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   YDC107_RS02885 Genome accession   NZ_CP025707
Coordinates   536690..538117 (+) Length   475 a.a.
NCBI ID   WP_021523141.1    Uniprot ID   -
Organism   Escherichia coli strain YDC107     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 531690..543117
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  YDC107_RS02845 yeeW 531864..532068 (+) 205 Protein_539 DUF5983 family protein -
  YDC107_RS02850 - 532114..532194 (+) 81 Protein_540 hypothetical protein -
  YDC107_RS28725 - 532683..532865 (+) 183 WP_001016348.1 EutP/PduV family microcompartment system protein -
  YDC107_RS02865 (YDC107_545) tmaR 532966..533295 (-) 330 WP_000450409.1 DUF496 family protein -
  YDC107_RS02870 (YDC107_546) yeeA 533467..534525 (-) 1059 WP_001200890.1 FUSC family protein -
  YDC107_RS02875 (YDC107_547) sbmC 534723..535196 (-) 474 WP_001105416.1 DNA gyrase inhibitor SbmC -
  YDC107_RS02880 (YDC107_548) dacD 535315..536481 (-) 1167 WP_105955772.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  YDC107_RS02885 (YDC107_549) sbcB 536690..538117 (+) 1428 WP_021523141.1 exodeoxyribonuclease I Machinery gene
  YDC107_RS02890 (YDC107_550) tsuB 538160..538387 (-) 228 WP_000985273.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  YDC107_RS02895 (YDC107_551) tsuA 538401..539459 (-) 1059 WP_000492324.1 thiosulfate utilization transporter TsuA/YeeE -
  YDC107_RS02900 (YDC107_552) plaP 539638..540996 (-) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  YDC107_RS02905 yoeI 540986..541048 (-) 63 WP_010723108.1 membrane protein YoeI -
  YDC107_RS02910 (YDC107_553) yeeY 541263..542192 (-) 930 WP_023154044.1 LysR substrate-binding domain-containing protein -
  YDC107_RS02915 (YDC107_554) yeeZ 542238..543062 (-) 825 WP_000754758.1 SDR family oxidoreductase -

Sequence

Protein


Download         Length: 475 a.a.        Molecular weight: 54513.81 Da        Isoelectric Point: 5.4700

>NTDB_id=219670 YDC107_RS02885 WP_021523141.1 536690..538117(+) (sbcB) [Escherichia coli strain YDC107]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDNEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EATFAARIHSLFTVPKTCILGYNNVRFDDEVTRNVFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNVVIMVDLAGDISPLLELDSDTLRERLYTAKADLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLAQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=219670 YDC107_RS02885 WP_021523141.1 536690..538117(+) (sbcB) [Escherichia coli strain YDC107]
ATGATGAATGACGGTAAGCAACAATCTACCTTTTTGTTTCACGATTACGAAACCTTTGGAACGCACCCCGCGTTAGATCG
CCCTGCACAGTTCGCAGCCATTCGCACTGATAACGAATTCAATGTAATCGGCGAACCCGAAGTCTTTTACTGCAAGCCCG
CGGATGACTATTTACCCCAGCCTGGAGCAGTATTAATTACCGGTATTACCCCGCAGGAAGCACGGGCGAAAGGAGAAAAC
GAAGCCACGTTTGCCGCCCGTATTCACTCGCTTTTTACCGTACCGAAGACCTGTATTCTGGGCTACAACAATGTGCGTTT
CGACGACGAAGTCACACGCAACGTTTTTTATCGTAATTTCTACGATCCTTACGCCTGGAGCTGGCAGCATGATAACTCGC
GCTGGGATTTACTGGATGTTATGCGTGCCTGTTATGCCCTGCGCCCGGAAGGAATAAACTGGCCTGAAAATGATGACGGT
CTACCGAGCTTTCGCCTTGAGCATTTAACCAAAGCGAATGGTATTGAACATAGCAACGCCCACGATGCGATGGCTGATGT
GTACGCCACTATTGCGATGGCGAAACTGGTAAAAACGCGTCAGCCACGTCTGTTTGATTATCTCTTTACCCATCGTAATA
AACACAAACTGATGGCGTTGATTGATGTTCCGCAGATGAAACCCCTGGTTCACGTTTCCGGAATGTTTGGGGCATGGCGT
GGCAATACCAGCTGGGTGGCACCGCTGGCGTGGCATCCTGAAAATCGCAATGTCGTAATTATGGTGGATTTGGCAGGAGA
CATTTCGCCATTACTGGAGCTGGATAGCGACACATTGCGCGAGCGTTTATATACCGCAAAAGCCGATCTTGGCGATAACG
CCGCCGTTCCGGTTAAGCTGGTGCACATCAATAAATGTCCGGTACTGGCCCAGGCGAATACGCTACGCCCGGAAGATGCC
GACCGACTGGGAATTAATCGTCAGCATTGCCTCGATAACCTAAAAATTCTGCGTGAAAATCCGCAAGTGCGTGAAAAAGT
GGTGGCGATATTCGCGGAAGCCGAACCGTTTACGCCTTCAGATAACGTGGATGCACAGCTTTATAACGGCTTTTTCAGTG
ACGCCGATCGTGCAGCAATGAAAATTGTGCTGGAAACCGAGCCGCGTAATTTACCGGCACTGGATATCACTTTTGTTGAT
AAACGAATTGAAAAACTGTTGTTCAATTATCGGGCGCGCAACTTCCCGGGGACGCTGGATTATGCCGAGCAGCAACGCTG
GCTTGAGCACCGCCGCCAGGTCTTCACGCCAGAGTTTTTGCAGGGCTACGCTGATGAATTGCAGATGCTGGCACAACAGT
ATGCCGATGACAAAGAGAAAGTGGCGCTGTTAAAAGCGCTTTGGCAGTACGCGGAAGAGATCGTCTAA

Domains

Predicted by InterProScan.

Exonuclease C-terminal (ExoI_SH3)

(212-472)

Exonuclease (RNase_T)

(13-188)


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

58.723

98.947

0.581