Detailed information    

experimental Experimentally validated

Overview

Name   ydiR   Type   Auxiliary factor
Locus tag   BSU_06090 Genome accession   NC_000964
Coordinates   659623..660564 (+) Length   313 a.a.
NCBI ID   NP_388490.1    Uniprot ID   -
Organism   Bacillus subtilis subsp. subtilis str. 168     
Function   digesting foreign DNA   
Defense system

Function

The ratio of the frequency of transformation with the plasmid without an XhoI site to the frequency of transformation with the plasmid with three XhoI sites was more than 10 times higher when the ydiR-ydiS-ydjA operon-disrupted strains were used.


Genomic Context

Location: 654623..665564
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSU_06060 (BSU06060) ydiO 655223..656506 (+) 1284 NP_388487.1 DNA-methyltransferase (cytosine-specific); prophage 3 region Auxiliary factor
  BSU_06070 (BSU06070) ydiP 656528..657697 (+) 1170 NP_388488.1 DNA-methyltransferase (cytosine-specific); defective prophage 3 Auxiliary factor
  BSU_06090 (BSU06090) ydiR 659623..660564 (+) 942 NP_388490.1 type-2 restriction enzyme BsuMI component BsuRA (YdiR); prophage region 3 Auxiliary factor
  BSU_06100 (BSU06100) ydiS 660596..661627 (+) 1032 NP_388491.1 type-2 restriction enzyme BsuMI component BsuRB (YdiS); prophage region 3 Auxiliary factor
  BSU_06110 (BSU06110) ydiA 661630..663027 (+) 1398 NP_388492.1 type-2 restriction enzyme BsuMI component BsuRC (YdjA); prophage region 3 Auxiliary factor
  BSU_06120 (BSU06120) ydjB 663601..663936 (+) 336 NP_388493.1 hypothetical protein; prophage region 3 -
  BSU_06130 (BSU06130) ydjC 664319..664669 (+) 351 NP_388494.1 conserved hypothetical protein; prophage region 3 -

Sequence

Protein


Download         Length: 313 a.a.        Molecular weight: 35311.31 Da        Isoelectric Point: 4.3016

>NTDB_id=73 BSU_06090 NP_388490.1 659623..660564(+) (ydiR) [Bacillus subtilis subsp. subtilis str. 168]
MTFIKRLEDAYETLLGNYPAGVSSTSTSKYNEIRKIVSEAFLIGENEVYVTGTSRRISNLDTRFAQGNQRNKHTRMAVAF
ISIPSVDDSELDELIIRTRNSAITTSSKFCNGEERGTIFDGILLFLVFEGETKVYPLAFLVFENDFELKEKAEELIPGIE
LKEYPRANQSPAQENNKSAKNEDEESAKSYVVFLDIEEDGSIVEFVEDKDKTYRIGDMIWTASHTNGSSAITRRLEVIEV
VENLVVCKIKHKYNEPVDKNSLLKFVNIEQDLISFLDLHPNVQNGSEGFVSGDIVDENATTSSDDLPEDFENN

Nucleotide


Download         Length: 942 bp        

>NTDB_id=73 BSU_06090 NP_388490.1 659623..660564(+) (ydiR) [Bacillus subtilis subsp. subtilis str. 168]
ATGACTTTTATAAAAAGATTAGAGGACGCTTATGAAACTCTATTAGGGAATTACCCTGCCGGAGTATCTAGTACCAGTAC
TAGTAAGTATAACGAAATACGAAAGATTGTTTCAGAAGCCTTCTTGATCGGTGAAAATGAAGTGTATGTAACGGGAACAT
CAAGAAGGATTAGCAATTTGGACACTCGGTTTGCTCAAGGAAATCAACGGAATAAACATACCCGGATGGCAGTTGCTTTT
ATTTCTATACCTTCTGTGGACGATTCGGAATTAGATGAACTAATTATAAGAACGAGAAATAGTGCAATTACAACCTCATC
TAAATTCTGTAACGGGGAAGAAAGGGGCACGATTTTTGACGGAATATTACTTTTTTTAGTATTTGAGGGTGAAACCAAAG
TGTATCCGCTAGCATTCTTAGTTTTCGAGAACGATTTTGAATTAAAGGAAAAGGCTGAGGAATTGATTCCAGGAATTGAA
CTCAAAGAATACCCGCGAGCTAATCAATCCCCAGCCCAGGAAAATAACAAAAGCGCTAAAAATGAAGATGAGGAAAGTGC
AAAGAGCTATGTAGTCTTCCTTGATATTGAGGAAGATGGTTCTATTGTGGAATTTGTAGAAGATAAAGACAAAACCTATA
GAATTGGTGATATGATTTGGACGGCTTCACATACTAATGGTTCATCAGCTATCACACGCAGACTGGAAGTAATTGAAGTC
GTTGAAAATCTTGTGGTGTGTAAGATAAAACATAAATATAATGAACCTGTTGATAAGAATTCACTGCTTAAGTTTGTAAA
TATTGAACAAGATTTGATTTCATTTCTAGACTTACATCCAAATGTCCAAAATGGAAGTGAGGGATTTGTATCTGGGGACA
TTGTTGATGAGAACGCTACTACATCATCGGATGACTTACCGGAAGACTTTGAAAATAACTAA

Domains


No domain identified.



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

References

[1] Hideyuki Ohshima et al. (2002) Molecular organization of intrinsic restriction and modification genes BsuM of Bacillus subtilis Marburg. Journal of Bacteriology 184(2):381-9. [PMID: 11751814]