Detailed information    

insolico Bioinformatically predicted

Overview

Name   sbcB   Type   Machinery gene
Locus tag   CDH88_RS23215 Genome accession   NZ_CP021840
Coordinates   4596493..4597920 (+) Length   475 a.a.
NCBI ID   WP_000980589.1    Uniprot ID   P04995
Organism   Escherichia coli strain EC974     
Function   promote homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 4591493..4602920
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CDH88_RS23185 (CDH88_23170) yeeW 4591677..4591871 (+) 195 WP_000988600.1 DUF5983 family protein -
  CDH88_RS28305 - 4591917..4591997 (+) 81 Protein_4268 hypothetical protein -
  CDH88_RS29170 - 4592486..4592668 (+) 183 WP_157698277.1 EutP/PduV family microcompartment system protein -
  CDH88_RS23195 (CDH88_23180) tmaR 4592769..4593098 (-) 330 WP_000450409.1 DUF496 family protein -
  CDH88_RS23200 (CDH88_23185) yeeA 4593270..4594328 (-) 1059 WP_001200890.1 FUSC family protein -
  CDH88_RS23205 (CDH88_23190) sbmC 4594526..4594999 (-) 474 WP_001105416.1 DNA gyrase inhibitor SbmC -
  CDH88_RS23210 (CDH88_23195) dacD 4595118..4596284 (-) 1167 WP_000830156.1 serine-type D-Ala-D-Ala carboxypeptidase DacD -
  CDH88_RS23215 (CDH88_23200) sbcB 4596493..4597920 (+) 1428 WP_000980589.1 exodeoxyribonuclease I Machinery gene
  CDH88_RS23220 (CDH88_23205) tsuB 4597963..4598190 (-) 228 WP_000234896.1 thiosulfate utilization sulfurtransferase TsuB/YeeD -
  CDH88_RS23225 (CDH88_23210) tsuA 4598204..4599262 (-) 1059 WP_000492339.1 thiosulfate utilization transporter TsuA/YeeE -
  CDH88_RS23230 (CDH88_23215) plaP 4599441..4600799 (-) 1359 WP_000019197.1 putrescine/proton symporter PlaP -
  CDH88_RS28320 yoeI 4600789..4600851 (-) 63 WP_010723108.1 membrane protein YoeI -
  CDH88_RS23235 (CDH88_23220) yeeY 4601066..4601995 (-) 930 WP_000803340.1 LysR substrate-binding domain-containing protein -
  CDH88_RS23240 (CDH88_23225) yeeZ 4602041..4602865 (-) 825 WP_072666641.1 SDR family oxidoreductase -

Sequence

Protein


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

>NTDB_id=196638 CDH88_RS23215 WP_000980589.1 4596493..4597920(+) (sbcB) [Escherichia coli strain EC974]
MMNDGKQQSTFLFHDYETFGTHPALDRPAQFAAIRTDSEFNVIGEPEVFYCKPADDYLPQPGAVLITGITPQEARAKGEN
EAAFAARIHSLFTVPKTCILGYNNVRFDDEVTRNIFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDG
LPSFRLEHLTKANGIEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSGMFGAWR
GNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNAAVPVKLVHINKCPVLAQANTLRPEDA
DRLGINRQHCLDNLKILRENPQVREKVVAIFAEAEPFTPSDNVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVD
KRIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKVALLKALWQYAEEIV

Nucleotide


Download         Length: 1428 bp        

>NTDB_id=196638 CDH88_RS23215 WP_000980589.1 4596493..4597920(+) (sbcB) [Escherichia coli strain EC974]
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